Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7304151
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 31
Found at i:2902587 original size:22 final size:22
Alignment explanation
Indices: 2902561--2902603 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2902551 TAATAAATTA
2902561 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2902583 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2902604 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2902612 original size:22 final size:22
Alignment explanation
Indices: 2902563--2902611 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2902553 ATAAATTATT
**
2902563 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2902585 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2902608 TAAA
1 TAAA
2902612 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2902641 original size:22 final size:22
Alignment explanation
Indices: 2902615--2902679 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
2902605 TAATAAATTA
2902615 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATTCATAT
2902637 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATTCATAT
* *
2902659 TTTAAAATCAATCAATCCATA
1 TTTAAAATAAATCAATTCATA
2902680 CTAATAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATTCATAT
Found at i:2902658 original size:76 final size:77
Alignment explanation
Indices: 2902083--2902733 Score: 672
Period size: 80 Copynumber: 8.3 Consensus size: 77
2902073 TAATAAATTA
2902083 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
*
2902148 TCAATCCATAGAAC
66 TCAATCCAT--AAT
** *
2902162 TACAATAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
1 TTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
*
2902227 ATCAATCCATACAAC
65 ATCAATCCAT--AAT
** * *
2902242 TACAATAATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAA
1 TTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
2902307 ATCAATCTATACTAATAAATT
65 ATCAATC----C--AT-AA-T
* ** *
2902328 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATA-TTTTAAA--A--T-AAATCA
1 -TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
* *
2902387 ATCCATACTAATAAATT
65 ATCAAT-C-CAT-AA-T
*
2902404 ATTTAAAATAAATCAATTCATATTTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAA
1 -TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
* *
2902459 ATCAATACATACAAC
65 ATCAATCCAT--AAT
** *
2902474 TACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAA
1 TTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
2902539 ATCAATCCATACTAATAAATT
65 ATCAAT-C---C--AT-AA-T
2902560 ATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
1 -TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
*
2902625 ATCAATTCAT-AT
65 ATCAATCCATAAT
* *
2902637 TTTAAAATAAATCAATTCATATTTTAAAATCAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
2902702 TCAATCCAT-AT
66 TCAATCCATAAT
2902713 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2902734 CTAATAAATT
Statistics
Matches: 497, Mismatches: 40, Indels: 73
0.81 0.07 0.12
Matches are distributed among these distances:
69 4 0.01
70 34 0.07
71 5 0.01
72 10 0.02
74 1 0.00
75 1 0.00
76 140 0.28
77 1 0.00
78 2 0.00
79 4 0.01
80 171 0.34
81 2 0.00
82 1 0.00
83 1 0.00
84 2 0.00
85 8 0.02
86 104 0.21
87 6 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (77 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
TCAATCCATAAT
Found at i:2902717 original size:22 final size:22
Alignment explanation
Indices: 2902691--2902733 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2902681 TAATAAATTA
2902691 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2902713 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2902734 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2902742 original size:22 final size:22
Alignment explanation
Indices: 2902693--2902741 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2902683 ATAAATTATT
**
2902693 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2902715 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2902738 TAAA
1 TAAA
2902742 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2902822 original size:22 final size:22
Alignment explanation
Indices: 2902747--2902821 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
2902737 ATAAATTATT
* *
2902747 TAAAATAAATCAATCCACACAA
1 TAAAATAAATCAATCCATATAA
**
2902769 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
2902795 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2902818 TAAA
1 TAAA
2902822 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
25 3 0.07
26 15 0.36
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2902851 original size:18 final size:18
Alignment explanation
Indices: 2902798--2902854 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
2902788 CATATTTTAA
*
2902798 AATAAATCAATCCATACT
1 AATAAATCAATTCATACT
* *
2902816 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
2902830 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
2902848 AATAAAT
1 AATAAAT
2902855 TATTTTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 7 0.23
15 5 0.17
17 4 0.13
18 14 0.47
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:2902881 original size:15 final size:15
Alignment explanation
Indices: 2902816--2902980 Score: 163
Period size: 15 Copynumber: 10.5 Consensus size: 15
2902806 AATCCATACT
2902816 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
* * *
2902830 AATAAATCAATTCATACT
1 AATAAAT-TATT-TTA-A
2902848 AATAAATTATTTT-A
1 AATAAATTATTTTAA
2902862 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
2902877 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
2902899 AATAATTTATTTTAA
1 AATAAATTATTTTAA
* *
2902914 AGTAAATTATTTTAT
1 AATAAATTATTTTAA
2902929 AATAAATTATTTTAA
1 AATAAATTATTTTAA
2902944 AATAAATTATTTTAA
1 AATAAATTATTTTAA
2902959 AATAAATTATTTTAA
1 AATAAATTATTTTAA
2902974 AATAAAT
1 AATAAAT
2902981 AACCTTATTA
Statistics
Matches: 125, Mismatches: 14, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
14 20 0.16
15 74 0.59
16 2 0.02
17 6 0.05
18 9 0.07
19 3 0.02
20 1 0.01
22 10 0.08
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.45
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:2905163 original size:15 final size:15
Alignment explanation
Indices: 2905139--2905172 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2905129 ATACCAAAGG
2905139 AAGGGCATCGATACT
1 AAGGGCATCGATACT
*
2905154 AAGGGTATCGATACT
1 AAGGGCATCGATACT
2905169 AAGG
1 AAGG
2905173 TATAAGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (15 bp):
AAGGGCATCGATACT
Found at i:2905950 original size:23 final size:22
Alignment explanation
Indices: 2905916--2905975 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
2905906 AGTTGAGGGC
2905916 TCTACGCTGTCCTTCGAGACAAT
1 TCTACG-TGTCCTTCGAGACAAT
*
2905939 TCTACGTGGTCCTTCGGGACAAT
1 TCTACGT-GTCCTTCGAGACAAT
* *
2905962 ACTATGTAGTCCTT
1 TCTACGT-GTCCTT
2905976 AGGGATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (22 bp):
TCTACGTGTCCTTCGAGACAAT
Found at i:2905980 original size:23 final size:23
Alignment explanation
Indices: 2905924--2905980 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
2905914 GCTCTACGCT
* * *
2905924 GTCCTTCGAGACAATTCTACGTG
1 GTCCTTCGGGACAATACTACGTA
*
2905947 GTCCTTCGGGACAATACTATGTA
1 GTCCTTCGGGACAATACTACGTA
*
2905970 GTCCTTAGGGA
1 GTCCTTCGGGA
2905981 TATTTCTAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (23 bp):
GTCCTTCGGGACAATACTACGTA
Found at i:2906008 original size:23 final size:24
Alignment explanation
Indices: 2905982--2906032 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
2905972 CCTTAGGGAT
* *
2905982 ATTTCTA-GTGGCACTTTAGTGCA
1 ATTTCTACCTGGCACTTCAGTGCA
*
2906005 ATTTCTACCTGGCACTTCGGTGCA
1 ATTTCTACCTGGCACTTCAGTGCA
2906029 ATTT
1 ATTT
2906033 ATAGGAGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTTCTACCTGGCACTTCAGTGCA
Found at i:2906141 original size:6 final size:6
Alignment explanation
Indices: 2906130--2906168 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
2906120 AAATGAAAAA
* * *
2906130 GATAAT GATAAT GATATT AATAAT GATAAT GAGAAT GAT
1 GATAAT GATAAT GATAAT GATAAT GATAAT GATAAT GAT
2906169 GTCACTGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (6 bp):
GATAAT
Found at i:2910704 original size:42 final size:42
Alignment explanation
Indices: 2910644--2910729 Score: 95
Period size: 42 Copynumber: 2.0 Consensus size: 42
2910634 AATTGAAGAT
*
2910644 TGTTATATGAAACACTATGCA-TATATGT-TCTATGTGAATAAA
1 TGTTATAGGAAACACTATG-ATTA-ATGTATCTATGTGAATAAA
** * *
2910686 TGTTATAGGAAATGCTATGATTAATTTATTTATGTGAATAAA
1 TGTTATAGGAAACACTATGATTAATGTATCTATGTGAATAAA
2910728 TG
1 TG
2910730 ATAAATTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
41 4 0.11
42 33 0.89
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (42 bp):
TGTTATAGGAAACACTATGATTAATGTATCTATGTGAATAAA
Found at i:2911174 original size:23 final size:23
Alignment explanation
Indices: 2911141--2911202 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
2911131 ATCTTATATG
2911141 GCACTTCGGTGCATTTCTACGCGA
1 GCACTTCGGTGCATTTCTACG-GA
* * *
2911165 -CACTTAGGTGCAATTCTACGTA
1 GCACTTCGGTGCATTTCTACGGA
2911187 GCACTTCGGTGCATTT
1 GCACTTCGGTGCATTT
2911203 ATATGAGCCG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (23 bp):
GCACTTCGGTGCATTTCTACGGA
Found at i:2916501 original size:2 final size:2
Alignment explanation
Indices: 2916494--2916518 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2916484 TTACATGTAT
2916494 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2916519 TATCGAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2916777 original size:18 final size:19
Alignment explanation
Indices: 2916748--2916791 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
2916738 GAAAGTCTTA
*
2916748 TCTGTTTATTTTTTTTTAT
1 TCTGTTTATTTTTTATTAT
2916767 TCTGTTT-TTTTTTATTAT
1 TCTGTTTATTTTTTATTAT
2916785 TCTGTTT
1 TCTGTTT
2916792 CTAGTTTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.09, C:0.07, G:0.07, T:0.77
Consensus pattern (19 bp):
TCTGTTTATTTTTTATTAT
Found at i:2919763 original size:29 final size:29
Alignment explanation
Indices: 2919658--2919766 Score: 164
Period size: 29 Copynumber: 3.7 Consensus size: 29
2919648 ACTTTTTATG
* * *
2919658 ATTTTGATGAAAAGTCATAATTTTTTCTG
1 ATTTTGATGAAAAGTCGTAATTTTTTTTA
*
2919687 ATTTTGATGAAAAGTCTTAATTTTTTTTTTA
1 ATTTTGATGAAAAGTCGTAA--TTTTTTTTA
2919718 ATTTTGATGAAAAGTCGTAATTTTTTTTA
1 ATTTTGATGAAAAGTCGTAATTTTTTTTA
2919747 ATTTTGATGAAAAGTCGTAA
1 ATTTTGATGAAAAGTCGTAA
2919767 CTATTGATTT
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
29 48 0.65
31 26 0.35
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (29 bp):
ATTTTGATGAAAAGTCGTAATTTTTTTTA
Found at i:2920206 original size:14 final size:14
Alignment explanation
Indices: 2920184--2920213 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2920174 CAAAAATTCT
2920184 TAAAAGAATATAAA
1 TAAAAGAATATAAA
*
2920198 TAAACGAATATAAA
1 TAAAAGAATATAAA
2920212 TA
1 TA
2920214 TAAATTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
TAAAAGAATATAAA
Found at i:2920575 original size:16 final size:16
Alignment explanation
Indices: 2920556--2920586 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2920546 TTCCTCTATT
2920556 TATTTTTTTAAATATA
1 TATTTTTTTAAATATA
*
2920572 TATTTTTTTTAATAT
1 TATTTTTTTAAATAT
2920587 TAATTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTTTTAAATATA
Found at i:2922284 original size:24 final size:24
Alignment explanation
Indices: 2922257--2922321 Score: 121
Period size: 24 Copynumber: 2.7 Consensus size: 24
2922247 TAAAAAAACC
*
2922257 GTGATAAACTTTTTTCCACATACA
1 GTGATAAACTTTTTCCCACATACA
2922281 GTGATAAACTTTTTCCCACATACA
1 GTGATAAACTTTTTCCCACATACA
2922305 GTGATAAACTTTTTCCC
1 GTGATAAACTTTTTCCC
2922322 CGTACTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (24 bp):
GTGATAAACTTTTTCCCACATACA
Found at i:2923140 original size:65 final size:65
Alignment explanation
Indices: 2923062--2923250 Score: 272
Period size: 65 Copynumber: 2.9 Consensus size: 65
2923052 GAACATATAT
* *
2923062 ATATCACTCATATGATTTATGTACCTTTGTGGTGCATGGAGTGGAGTGATAATTGAATACAGTAC
1 ATATCACTCATATGACTCATGTACCTTTGTGGTGCATGGAGTGGAGTGATAATTGAATACAGTAC
* * * *
2923127 ATATCACTTATATGACCCATGTACCTTTGTGGTGCATGAAGTGGAGTGATAATTGTATACAGTAC
1 ATATCACTCATATGACTCATGTACCTTTGTGGTGCATGGAGTGGAGTGATAATTGAATACAGTAC
* * * *
2923192 AAATTACTCATATGACTCGTGTACCTTTGTGGTGCAT-GAGGTGGAGTGATAATTAAATA
1 ATATCACTCATATGACTCATGTACCTTTGTGGTGCATGGA-GTGGAGTGATAATTGAATA
2923251 GTGCAAATAT
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 1 0.01
65 108 0.99
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (65 bp):
ATATCACTCATATGACTCATGTACCTTTGTGGTGCATGGAGTGGAGTGATAATTGAATACAGTAC
Found at i:2923438 original size:17 final size:16
Alignment explanation
Indices: 2923418--2923474 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
2923408 AATAATGTAA
2923418 TAAAAGAAAAGATACAG
1 TAAAAGAAAA-ATACAG
2923435 T-AAAGAAATTAATACAG
1 TAAAAGAAA--AATACAG
* *
2923452 AAAAAGGAACAATACAG
1 TAAAA-GAAAAATACAG
2923469 TAAAAG
1 TAAAAG
2923475 GAATGCTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 8 0.24
17 18 0.55
18 4 0.12
19 3 0.09
ACGTcount: A:0.63, C:0.07, G:0.16, T:0.14
Consensus pattern (16 bp):
TAAAAGAAAAATACAG
Found at i:2923475 original size:17 final size:17
Alignment explanation
Indices: 2923445--2923477 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2923435 TAAAGAAATT
2923445 AATACAGAAAAAGGAAC
1 AATACAGAAAAAGGAAC
*
2923462 AATACAGTAAAAGGAA
1 AATACAGAAAAAGGAA
2923478 TGCTATAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.09, G:0.18, T:0.09
Consensus pattern (17 bp):
AATACAGAAAAAGGAAC
Found at i:2923605 original size:17 final size:17
Alignment explanation
Indices: 2923583--2923615 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2923573 ACAGTAAAAT
2923583 GTTATAAACAATGAATG
1 GTTATAAACAATGAATG
*
2923600 GTTATAAACTATGAAT
1 GTTATAAACAATGAAT
2923616 TATATTGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (17 bp):
GTTATAAACAATGAATG
Found at i:2925010 original size:12 final size:13
Alignment explanation
Indices: 2924982--2925014 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
2924972 TAAATTGAAC
2924982 AAATACAAAATTAT
1 AAATA-AAAATTAT
2924996 AAATAAAAATT-T
1 AAATAAAAATTAT
2925008 AAATAAA
1 AAATAAA
2925015 TTAAACAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 6 0.32
14 5 0.26
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAAAATTAT
Found at i:2925138 original size:2 final size:2
Alignment explanation
Indices: 2925121--2925528 Score: 108
Period size: 2 Copynumber: 205.5 Consensus size: 2
2925111 TTAAAACAAT
*
2925121 TA TA -A TA TA CA TA TA TA TA TA TA TA CTA TA TA TGA -A CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T-A TA -TA TA
* * * ** *
2925162 TA T- TA TG TA TA AA CTA TA GTT TA TA TA TA -A CG TA TA TA CA TA
1 TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* **
2925204 T- TA TA TA TA TA TA TA TA -A TA TA TA GTG TA TA T- TA CG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
2925244 AA CTA TA TA GTT TA T- TA -A TA TA AA CTA TA TA TA AA CTA TA TA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA
* * * * * * *
2925286 GTG TT TA TA TA AA GTA TA TA T- TA TA TA AA AA TA TG TA TA TA AA
1 -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** *
2925329 T- TA TA TA GG T- TA TA TT TA TA T- TA T- TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2925366 TA AA CTA TA TA TA T- TA TG TA TA AA T- TA TA TA GTT TA T- TA -A
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * * *
2925406 TA TA AA CTA TA TA CA AA T- TA TA TA GTG TA TA TA TA AA GTA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA
* * * *
2925448 TA TA T- TA TA TA GA TA AA CTA TA TA TA TA AA T- TA TA TA CTT TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
* *
2925490 TA TT TA TA T- TA T- TA TA TA CTA TA TA TA AA CTA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA T
2925529 TATGTATAAA
Statistics
Matches: 289, Mismatches: 72, Indels: 90
0.64 0.16 0.20
Matches are distributed among these distances:
1 24 0.08
2 242 0.84
3 23 0.08
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:2925150 original size:11 final size:11
Alignment explanation
Indices: 2925121--2925528 Score: 85
Period size: 11 Copynumber: 38.3 Consensus size: 11
2925111 TTAAAACAAT
* *
2925121 TATAATATACA
1 TATACTATATA
2925132 TATA-TATATA
1 TATACTATATA
2925142 TATACTATATA
1 TATACTATATA
2925153 TGA-ACTATATA
1 T-ATACTATATA
* *
2925164 T-TATGTATAAA
1 TATA-CTATATA
* *
2925175 CTATAGTTTATA
1 -TATACTATATA
2925187 TATAACGTATATA
1 TAT-AC-TATATA
* *
2925200 CATATTATATA
1 TATACTATATA
2925211 TATA-TATATA
1 TATACTATATA
*
2925221 -ATA-TATAGTG
1 TATACTATA-TA
* **
2925231 TATATTACGTA
1 TATACTATATA
*
2925242 TAAACTATATA
1 TATACTATATA
* *
2925253 GTTTATTA-ATA
1 -TATACTATATA
*
2925264 TAAACTATATA
1 TATACTATATA
*
2925275 TAAACTATATA
1 TATACTATATA
*
2925286 GTGT--T-TATA
1 -TATACTATATA
* *
2925295 TAAAGTATATA
1 TATACTATATA
*
2925306 T-TA-TATAAA
1 TATACTATATA
* *
2925315 AATA-TGTATA
1 TATACTATATA
*
2925325 TA-AAT-TATA
1 TATACTATATA
*** *
2925334 TAGGTTATATT
1 TATACTATATA
*
2925345 TATATTAT-TA
1 TATACTATATA
*
2925355 TATATTATATA
1 TATACTATATA
*
2925366 TAAACTATATA
1 TATACTATATA
*
2925377 TAT--TATGTA
1 TATACTATATA
* *
2925386 TAAATTATATA
1 TATACTATATA
* *
2925397 GTTTATTA-ATA
1 -TATACTATATA
*
2925408 TAAACTATATA
1 TATACTATATA
* *
2925419 CA-AAT-TATA
1 TATACTATATA
*
2925428 TAGT-GTATATA
1 TA-TACTATATA
* *
2925439 TAAAGTATATA
1 TATACTATATA
*
2925450 TATTA-TATAGA
1 TA-TACTATATA
*
2925461 TAAACTATATA
1 TATACTATATA
*
2925472 TATA-AAT-TA
1 TATACTATATA
*
2925481 TATACTTTATA
1 TATACTATATA
*
2925492 TTTA-TATTATTA
1 TATACTA-TA-TA
2925504 TATACTATATA
1 TATACTATATA
*
2925515 TAAACTATATA
1 TATACTATATA
2925526 TAT
1 TAT
2925529 TATGTATAAA
Statistics
Matches: 291, Mismatches: 69, Indels: 74
0.67 0.16 0.17
Matches are distributed among these distances:
8 1 0.00
9 41 0.14
10 54 0.19
11 155 0.53
12 29 0.10
13 11 0.04
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (11 bp):
TATACTATATA
Found at i:2925280 original size:33 final size:31
Alignment explanation
Indices: 2925240--2925306 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 31
2925230 GTATATTACG
*
2925240 TATAAACTATATAGTTTATTAATATAAACTATA
1 TATAAACTATATAGTGT-TT-ATATAAACTATA
*
2925273 TATAAACTATATAGTGTTTATATAAAGTATA
1 TATAAACTATATAGTGTTTATATAAACTATA
2925304 TAT
1 TAT
2925307 TATATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 14 0.44
32 2 0.06
33 16 0.50
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (31 bp):
TATAAACTATATAGTGTTTATATAAACTATA
Found at i:2925312 original size:9 final size:9
Alignment explanation
Indices: 2925300--2925536 Score: 65
Period size: 9 Copynumber: 26.7 Consensus size: 9
2925290 TTATATAAAG
2925300 TATATATTA
1 TATATATTA
**
2925309 TATA-AAAA
1 TATATATTA
*
2925317 TATGTA-TA
1 TATATATTA
2925325 TA-A-ATTA
1 TATATATTA
**
2925332 TATAGGTTA
1 TATATATTA
2925341 TATTTATATTA
1 TA-T-ATATTA
2925352 TTATATATTA
1 -TATATATTA
*
2925362 TATATAAACTA
1 TATAT--ATTA
2925373 TATATATTA
1 TATATATTA
*
2925382 TGTATAAATTA
1 --TATATATTA
2925393 TATAGT-TTA
1 TATA-TATTA
2925402 T-TA-A-TA
1 TATATATTA
*
2925408 TAAACTA-TA
1 TATA-TATTA
* *
2925417 TACAAATTA
1 TATATATTA
*
2925426 TATAGTGTATA
1 TATA-TAT-TA
* *
2925437 TATAAAGTA
1 TATATATTA
2925446 TATATATTA
1 TATATATTA
*
2925455 TATAGA-TA
1 TATATATTA
*
2925463 AACTATA-TA
1 TA-TATATTA
*
2925472 TATAAATTA
1 TATATATTA
*
2925481 TATA-CTT-
1 TATATATTA
2925488 TATAT-TTA
1 TATATATTA
2925496 TAT-TATTA
1 TATATATTA
2925504 TATACTA-TA
1 TATA-TATTA
* *
2925513 TATAAACTA
1 TATATATTA
2925522 TATATATTA
1 TATATATTA
*
2925531 TGTATA
1 TATATA
2925537 AACTATATCT
Statistics
Matches: 168, Mismatches: 33, Indels: 54
0.66 0.13 0.21
Matches are distributed among these distances:
6 4 0.02
7 12 0.07
8 30 0.18
9 83 0.49
10 10 0.06
11 27 0.16
12 2 0.01
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (9 bp):
TATATATTA
Found at i:2925536 original size:20 final size:20
Alignment explanation
Indices: 2925321--2925699 Score: 167
Period size: 20 Copynumber: 19.3 Consensus size: 20
2925311 TAAAAATATG
* **
2925321 TATATAAATTATATAGGTTA
1 TATATAAACTATATATATTA
* * *
2925341 TATTTATATTATTATATATTA
1 TATATAAACTA-TATATATTA
2925362 TATATAAACTATATATATTA
1 TATATAAACTATATATATTA
*
2925382 TGTATAAA-T-TATATAGTT-
1 TATATAAACTATATATA-TTA
*
2925400 TAT-T-AA-TATA-A-ACTA
1 TATATAAACTATATATATTA
*
2925415 TATACAAA-T-TATATAGTGTA
1 TATATAAACTATATATA-T-TA
*
2925435 TATATAAAGTATATATATTA
1 TATATAAACTATATATATTA
2925455 TATAGATAAACTATATATA-TA
1 TAT--ATAAACTATATATATTA
* *
2925476 AATTATATACT-T-TATATT-
1 TA-TATAAACTATATATATTA
* *
2925494 TATAT-TA-T-TATATACTA
1 TATATAAACTATATATATTA
2925511 TATATAAACTATATATATTA
1 TATATAAACTATATATATTA
* * **
2925531 TGTATAAACTATATCTACGA
1 TATATAAACTATATATATTA
* * *
2925551 TGTAAAAACTATAGAGT-TTA
1 TATATAAACTATATA-TATTA
* * *
2925571 TATATGAACTAT-TAAACTA
1 TATATAAACTATATATATTA
2925590 T-TATAAACTATATAGT-TTA
1 TATATAAACTATATA-TATTA
*
2925609 TTAATATAAATTATATAGT-TTA
1 -T-ATATAAACTATATA-TATTA
* *
2925631 CATATAAATTATATATGAATTA
1 TATATAAACTATATAT--ATTA
* *
2925653 TATTTAAA-TATATACAACTTA
1 TATATAAACTATATA-TA-TTA
*
2925674 TATATATA-TATATATATATA
1 TATATAAACTATATATAT-TA
2925694 TATATA
1 TATATA
2925700 TATATATGTG
Statistics
Matches: 279, Mismatches: 46, Indels: 68
0.71 0.12 0.17
Matches are distributed among these distances:
14 1 0.00
15 6 0.02
16 13 0.05
17 15 0.05
18 24 0.09
19 16 0.06
20 116 0.42
21 42 0.15
22 46 0.16
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (20 bp):
TATATAAACTATATATATTA
Found at i:2925646 original size:22 final size:21
Alignment explanation
Indices: 2925591--2925645 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
2925581 ATTAAACTAT
*
2925591 TATAAACTATATAGTTTATTAA
1 TATAAATTATATAGTTTA-TAA
*
2925613 TATAAATTATATAGTTTA-CA
1 TATAAATTATATAGTTTATAA
2925633 TATAAATTATATA
1 TATAAATTATATA
2925646 TGAATTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 14 0.45
22 17 0.55
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (21 bp):
TATAAATTATATAGTTTATAA
Found at i:2925666 original size:21 final size:22
Alignment explanation
Indices: 2925632--2925688 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
2925622 TATAGTTTAC
*
2925632 ATATAAATTATATATGAA-TTAT
1 ATATAAA-TATATATCAACTTAT
*
2925654 ATTTAAATATATA-CAACTTAT
1 ATATAAATATATATCAACTTAT
*
2925675 ATATATATATATAT
1 ATATAAATATATAT
2925689 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 21 0.72
22 6 0.21
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (22 bp):
ATATAAATATATATCAACTTAT
Found at i:2925677 original size:2 final size:2
Alignment explanation
Indices: 2925672--2925706 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2925662 ATATACAACT
2925672 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2925707 GTGTGTGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2925752 original size:22 final size:20
Alignment explanation
Indices: 2925726--2926172 Score: 105
Period size: 22 Copynumber: 21.6 Consensus size: 20
2925716 TGTGTGTGTG
2925726 TATAATCATAAAGACTAAAGTA
1 TATAAT-ATAAAGA-TAAAGTA
*
2925748 TATAAGTATATAATATAAAGTA
1 TATAA-TATA-AAGATAAAGTA
2925770 TATACATATAAA-ATATAAGTA
1 TATA-ATATAAAGATA-AAGTA
* * * * *
2925791 TGT-GTATATATATATA-TA
1 TATAATATAAAGATAAAGTA
*
2925809 TATAAACAATAAAG-TAAAAGTA
1 TAT-AA-TATAAAGAT-AAAGTA
* *
2925831 TATATATATAAACTATAAATTATA
1 TATA-ATATAAA-GATAAA--GTA
* *
2925855 TATATATATATATATATAAAGTC
1 TATA-ATATA-A-AGATAAAGTA
* *
2925878 T-TAGTATAAA-ATATATATATA
1 TATAATATAAAGATA-A-A-GTA
2925899 TATAATATAAA-ATATAAGTA
1 TATAATATAAAGATA-AAGTA
* *
2925919 TAT--TATATATATAAAGTA
1 TATAATATAAAGATAAAGTA
*
2925937 TA-ATTATAAAGACTAAAGTA
1 TATAATATAAAGA-TAAAGTA
* * *
2925957 TATAAGCATATAATATAAATTA
1 TATAA-TATA-AAGATAAAGTA
* *
2925979 TATAAGTATATAATATAAAATA
1 TATAA-TATA-AAGATAAAGTA
* *
2926001 CATAAGTATTAAATATAAAG--
1 TATAA-TA-TAAAGATAAAGTA
* *
2926021 TAT-ATAT--ACATATA-TA
1 TATAATATAAAGATAAAGTA
2926037 -ATAATATAAAGTATATAAGTA
1 TATAATATAAAG-ATA-AAGTA
2926058 T-TAAATATAAAGTATAGAAAGTA
1 TAT-AATATAAAG-AT--AAAGTA
*
2926081 TA-ATTATAAAGACTAAAGTA
1 TATAATATAAAGA-TAAAGTA
*
2926101 TATAAGTATATAATATAAAGTA
1 TATAA-TATA-AAGATAAAGTA
*
2926123 TTTAAGTAT----ATAAAGTA
1 TATAA-TATAAAGATAAAGTA
*
2926140 TATATACATAAAG-TATAAGTA
1 TATA-ATATAAAGATA-AAGTA
2926161 TATATATATAAA
1 TATA-ATATAAA
2926173 CTATATAGTT
Statistics
Matches: 329, Mismatches: 44, Indels: 105
0.69 0.09 0.22
Matches are distributed among these distances:
15 7 0.02
16 4 0.01
17 14 0.04
18 23 0.07
19 21 0.06
20 36 0.11
21 50 0.15
22 131 0.40
23 22 0.07
24 13 0.04
25 7 0.02
26 1 0.00
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (20 bp):
TATAATATAAAGATAAAGTA
Found at i:2925778 original size:15 final size:14
Alignment explanation
Indices: 2925746--2926156 Score: 145
Period size: 15 Copynumber: 28.8 Consensus size: 14
2925736 AAGACTAAAG
2925746 TATATAAGTATATAA
1 TATA-AAGTATATAA
2925761 TATAAAGTATATACA
1 TATAAAGTATATA-A
2925776 TATAAA--ATATAA
1 TATAAAGTATATAA
**
2925788 GTAT-GTGTATAT-A
1 -TATAAAGTATATAA
*
2925801 TATATA-TATATAAA
1 TATAAAGTATAT-AA
*
2925815 CAATAAAGTA-A-AA
1 -TATAAAGTATATAA
*
2925828 GTATATA-TATATAAA
1 -TATAAAGTATAT-AA
*
2925843 CTATAAATTATAT-A
1 -TATAAAGTATATAA
*
2925857 TATATA-TATAT-A
1 TATAAAGTATATAA
* *
2925869 TATAAAGTCT-TAG
1 TATAAAGTATATAA
*
2925882 TATAAAATATATATA
1 TATAAAGTATATA-A
*
2925897 TATATAA-TATAAAA
1 TATA-AAGTATATAA
2925911 TAT-AAGTATATTATATA
1 TATAAAG--TA-TATA-A
*
2925928 TATAAAGTATA-AT
1 TATAAAGTATATAA
2925941 TATAAAG-ACTA-AA
1 TATAAAGTA-TATAA
*
2925954 GTATATAAGCATATAA
1 -TATA-AAGTATATAA
*
2925970 TATAAATTATATAA
1 TATAAAGTATATAA
*
2925984 GTATATAA-TATAAAA
1 -TATA-AAGTATATAA
*
2925999 TACATAAGTAT-TAAA
1 TATA-AAGTATAT-AA
2926014 TATAAAGTATAT-A
1 TATAAAGTATATAA
* *
2926027 TACATA-TATAATAA
1 TATAAAGTAT-ATAA
2926041 TATAAAGTATATAA
1 TATAAAGTATATAA
2926055 GTATTAAA-TATA-AA
1 -TA-TAAAGTATATAA
*
2926069 GTATAGAAAGTATA-AT
1 -TAT--AAAGTATATAA
2926085 TATAAAG-ACTA-AA
1 TATAAAGTA-TATAA
2926098 GTATATAAGTATATAA
1 -TATA-AAGTATATAA
*
2926114 TATAAAGTATTTAAGTA
1 TATAAAGTATAT-A--A
2926131 TATAAAGTATATATA
1 TATAAAGTATATA-A
*
2926146 CATAAAGTATA
1 TATAAAGTATA
2926157 AGTATATATA
Statistics
Matches: 309, Mismatches: 37, Indels: 100
0.69 0.08 0.22
Matches are distributed among these distances:
12 30 0.10
13 56 0.18
14 71 0.23
15 101 0.33
16 32 0.10
17 16 0.05
18 3 0.01
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.36
Consensus pattern (14 bp):
TATAAAGTATATAA
Found at i:2925836 original size:2 final size:2
Alignment explanation
Indices: 2925829--2925931 Score: 67
Period size: 2 Copynumber: 53.0 Consensus size: 2
2925819 AAAGTAAAAG
* *
2925829 TA TA TA TA TA TA AA CTA TA AA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2925871 TA AA GTC T- TA GTA TA -A AA TA TA TA TA TA TA TA -A TA TA -A AA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2925911 TA TA -A GTA TA T- TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA
2925932 AAGTATAATT
Statistics
Matches: 81, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
1 7 0.09
2 70 0.86
3 4 0.05
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (2 bp):
TA
Found at i:2925839 original size:28 final size:28
Alignment explanation
Indices: 2925794--2925929 Score: 98
Period size: 28 Copynumber: 4.7 Consensus size: 28
2925784 ATAAGTATGT
*
2925794 GTATATATATATATATATAAACAATAAA
1 GTATAAATATATATATATAAACAATAAA
*
2925822 GTA-AAAGTATATATATATAAACTATAAA
1 GTATAAA-TATATATATATAAACAATAAA
* * **
2925850 TTATATATATATATATATATATAA-AGTCTTA
1 GTATA-A-ATATATATATATA-AACAAT-AAA
*
2925881 GTATAAAATATATATATATATAA-TATAAA
1 GTAT-AAATATATATATATA-AACAATAAA
* *
2925910 ATATAAGTATATTATATATA
1 GTATAAATATA-TATATATA
2925930 TAAAGTATAA
Statistics
Matches: 86, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
27 2 0.02
28 31 0.36
29 13 0.15
30 31 0.36
31 8 0.09
32 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (28 bp):
GTATAAATATATATATATAAACAATAAA
Found at i:2925893 original size:60 final size:60
Alignment explanation
Indices: 2925746--2926179 Score: 249
Period size: 60 Copynumber: 7.1 Consensus size: 60
2925736 AAGACTAAAG
* * * *
2925746 TATAT-AAGTATATAA-TATAAAGTATATACATATAAAATATAAGTATGTGTATATATATATA
1 TATATAAAGTATA-AAGTATAAAGTATATATATAT-AAATATAAAT-TATATATATATATATA
**
2925807 TATATAAACAATAAAGTA-AAAGTATATATATATAAACTATAAATTATATATATATATATA
1 TATATAAAGTATAAAGTATAAAGTATATATATATAAA-TATAAATTATATATATATATATA
* * * *
2925867 TATATAAAGTCT-TAGTATAAAATATATATATATATAATATAAAATATAAGTATATTATATATA
1 TATATAAAGTATAAAGTATAAAGTATATATATATA-AATATAAATTAT-A-TATA-TATATATA
* * *
2925930 TAAAGTATAATTATAAAG-ACTAAAGTATATA-AGCATATAATATAAATTATATAAGTATATAAT
1 TATA-TA-AAGTATAAAGTA-TAAAGTATATATA-TATA-AATATAAATTATAT-A-TATAT-AT
2925993 ATAA
58 AT-A
* * * * *
2925997 AATACATAAGTATTAAA-TATAAAGTATATATACAT--ATAT-AATAATATAAAGTATATA-A
1 TATATA-AAGTA-TAAAGTATAAAGTATATATATATAAATATAAATTATATATA-TATATATA
* * *
2926055 GTAT-TAAA-TATAAAGTATAGAAAGTATA-AT-TATAAAGACTAAAGTATATA-A-GTATATA
1 -TATATAAAGTATAAAGTAT--AAAGTATATATATATAAATA-TAAATTATATATATATATATA
* * * *
2926113 -ATATAAAGTATTTAAGTATATAAAGTATATATACATAAAGTAT-AAGTATATATATATAAACTA
1 TATATAAAGTA-TAAAG--TATAAAGTATATATATATAAA-TATAAATTATATATATATATA-TA
2926176 TATA
1 TATA
2926180 GTTTATATTA
Statistics
Matches: 294, Mismatches: 37, Indels: 81
0.71 0.09 0.20
Matches are distributed among these distances:
55 4 0.01
56 9 0.03
57 12 0.04
58 15 0.05
59 20 0.07
60 72 0.24
61 44 0.15
62 22 0.07
63 17 0.06
64 6 0.02
65 11 0.04
66 53 0.18
67 9 0.03
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.37
Consensus pattern (60 bp):
TATATAAAGTATAAAGTATAAAGTATATATATATAAATATAAATTATATATATATATATA
Found at i:2925959 original size:66 final size:67
Alignment explanation
Indices: 2925768--2926145 Score: 261
Period size: 73 Copynumber: 5.6 Consensus size: 67
2925758 TAATATAAAG
* * **
2925768 TATATACATATAAA-ATATAAGTATGTGTATATATATATATA-TATAAACAATAAAG-TAAAAGT
1 TATATA-ATATAAATATATAAGTA--TATATATATATATAAAGTAT-AATTATAAAGAT-AAAGT
2925830 ATATATA
61 ATATATA
* * *
2925837 TATA-AACTATAAAT-TATATA-TATATATATATATATAAAGTCTTAGTAT----A-AAA-TATA
1 TATATAA-TATAAATATATA-AGTATATATATATATATAAAGTATAATTATAAAGATAAAGTATA
2925893 TATA
64 TATA
2925897 TATATAATATAAA-ATATAAGTATAT-TATATATATAAAGTATAATTATAAAGACTAAAGTATAT
1 TATATAATATAAATATATAAGTATATATATATATATAAAGTATAATTATAAAGA-TAAAGTATAT
2925960 A-A
65 ATA
* * * * *
2925962 GCATATAATATAAATTATATAAGTATATAATATAAAATACATAAGTATTAAATATAAAG-TATA-
1 -TATATAATATAAA-TATATAAGTATAT-ATAT-ATATATA-AAGTA-TAATTATAAAGATAAAG
*
2926025 TATACATA
60 TATATATA
* *
2926033 TATAATAATATAAAGTATATAAGTATTAAATATAAAGTATAGAAAGTATAATTATAAAGACTAAA
1 TAT-ATAATATAAA-TATATAAGTA-T--ATATATA-TATATAAAGTATAATTATAAAGA-TAAA
2926098 GTATATA-A
59 GTATATATA
* *
2926106 GTATATAATATAAAGTATTTAAGTATATAAAGTATATATA
1 -TATATAATATAAA-TATATAAGTATATATA-TATATATA
2926146 CATAAAGTAT
Statistics
Matches: 248, Mismatches: 27, Indels: 67
0.73 0.08 0.20
Matches are distributed among these distances:
59 20 0.08
60 27 0.11
61 5 0.02
63 1 0.00
65 4 0.02
66 35 0.14
67 3 0.01
68 25 0.10
69 5 0.02
70 19 0.08
71 40 0.16
72 13 0.05
73 41 0.17
74 10 0.04
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (67 bp):
TATATAATATAAATATATAAGTATATATATATATATAAAGTATAATTATAAAGATAAAGTATATA
TA
Found at i:2926016 original size:27 final size:27
Alignment explanation
Indices: 2925986--2926067 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
2925976 TTATATAAGT
2925986 ATATAATATAAAATACATAAGTATTAA
1 ATATAATATAAAATACATAAGTATTAA
*
2926013 ATATAA-AGTATATATACAT-A-TA-T--
1 ATATAATA-TA-AAATACATAAGTATTAA
* *
2926036 A-ATAATATAAAGTATATAAGTATTAA
1 ATATAATATAAAATACATAAGTATTAA
2926062 ATATAA
1 ATATAA
2926068 AGTATAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 5 0.12
22 7 0.17
23 4 0.10
24 1 0.02
25 1 0.02
26 4 0.10
27 13 0.31
28 7 0.17
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.35
Consensus pattern (27 bp):
ATATAATATAAAATACATAAGTATTAA
Found at i:2926161 original size:21 final size:21
Alignment explanation
Indices: 2926135--2926187 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2926125 TAAGTATATA
*
2926135 AAGTATATATACATAAAGTAT
1 AAGTATATATACATAAACTAT
*
2926156 AAGTATATATATATAAACTAT
1 AAGTATATATACATAAACTAT
*
2926177 ATAGTTTATAT
1 A-AGTATATAT
2926188 TATTATATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (21 bp):
AAGTATATATACATAAACTAT
Found at i:2926179 original size:11 final size:11
Alignment explanation
Indices: 2926163--2926238 Score: 64
Period size: 11 Copynumber: 6.7 Consensus size: 11
2926153 TATAAGTATA
2926163 TATATATAAAC
1 TATATATAAAC
**
2926174 TATATAGTTTA-
1 TATATA-TAAAC
*
2926185 TATTATTATATAC
1 TA-TA-TATAAAC
2926198 TATATATAAAC
1 TATATATAAAC
* *
2926209 TATATATACAT
1 TATATATAAAC
*
2926220 TATGTATAAAC
1 TATATATAAAC
2926231 TATATATA
1 TATATATA
2926239 CCATGTATAA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
11 38 0.75
12 9 0.18
13 4 0.08
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (11 bp):
TATATATAAAC
Found at i:2926208 original size:35 final size:33
Alignment explanation
Indices: 2926129--2926238 Score: 105
Period size: 35 Copynumber: 3.2 Consensus size: 33
2926119 AGTATTTAAG
* * * *
2926129 TATATAAAGTATATATACATAAAGTATAAGTATATA
1 TATATAAACTATATATACATTATGTAT-A-TA-CTA
*
2926165 TATATAAACTATATAGTTTATATTAT-TATATACTA
1 TATATAAACTATATA---TACATTATGTATATACTA
*
2926200 TATATAAACTATATATACATTATGTATAAACTA
1 TATATAAACTATATATACATTATGTATATACTA
2926233 TATATA
1 TATATA
2926239 CCATGTATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
32 7 0.11
33 14 0.22
35 17 0.27
36 16 0.25
37 1 0.02
38 3 0.05
39 5 0.08
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (33 bp):
TATATAAACTATATATACATTATGTATATACTA
Found at i:2926216 original size:20 final size:20
Alignment explanation
Indices: 2926191--2926295 Score: 90
Period size: 20 Copynumber: 5.2 Consensus size: 20
2926181 TTTATATTAT
2926191 TATATACTATATATAAACTA
1 TATATACTATATATAAACTA
*
2926211 TATATACATTATGTATAAACTA
1 TATATAC--TATATATAAACTA
* *
2926233 TATATACCATGTATAAACTA
1 TATATACTATATATAAACTA
* * * *
2926253 CAGAGT-TTATATATAATCTA
1 TATA-TACTATATATAAACTA
2926273 T-TGA-ACTATATATAAACTA
1 TAT-ATACTATATATAAACTA
2926292 TATA
1 TATA
2926296 GTTTATTAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
19 14 0.21
20 33 0.49
21 1 0.01
22 19 0.28
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (20 bp):
TATATACTATATATAAACTA
Found at i:2926216 original size:22 final size:22
Alignment explanation
Indices: 2926191--2926252 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
2926181 TTTATATTAT
*
2926191 TATATACTATATATAAACTATA
1 TATACACTATATATAAACTATA
* *
2926213 TATACATTATGTATAAACTATA
1 TATACACTATATATAAACTATA
*
2926235 TATAC-C-ATGTATAAACTA
1 TATACACTATATATAAACTA
2926253 CAGAGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.33
22 24 0.67
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (22 bp):
TATACACTATATATAAACTATA
Found at i:2926327 original size:20 final size:20
Alignment explanation
Indices: 2926279--2926337 Score: 91
Period size: 22 Copynumber: 2.9 Consensus size: 20
2926269 TCTATTGAAC
*
2926279 TATATATAAACTATATAGTT
1 TATATATAAATTATATAGTT
2926299 TATTAATATAAATTATATAGTT
1 TA-T-ATATAAATTATATAGTT
2926321 TATATATAAATTATATA
1 TATATATAAATTATATA
2926338 TGAATTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 16 0.44
21 2 0.06
22 18 0.50
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (20 bp):
TATATATAAATTATATAGTT
Found at i:2926328 original size:11 final size:11
Alignment explanation
Indices: 2926279--2926358 Score: 62
Period size: 11 Copynumber: 7.5 Consensus size: 11
2926269 TCTATTGAAC
*
2926279 TATATATAAAC
1 TATATATAAAT
**
2926290 TATATAGTTTAT
1 TATATA-TAAAT
2926302 TA-ATATAAAT
1 TATATATAAAT
2926312 TATATAGT---T
1 TATATA-TAAAT
2926321 TATATATAAAT
1 TATATATAAAT
*
2926332 TATATATGAAT
1 TATATATAAAT
*
2926343 TATATTTAAA-
1 TATATATAAAT
2926353 TATATA
1 TATATA
2926359 CAACTTATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
8 1 0.02
9 7 0.13
10 10 0.19
11 31 0.57
12 5 0.09
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (11 bp):
TATATATAAAT
Found at i:2926345 original size:22 final size:21
Alignment explanation
Indices: 2926259--2926358 Score: 75
Period size: 22 Copynumber: 4.8 Consensus size: 21
2926249 ACTACAGAGT
*
2926259 TTATATAT-AATCTAT-TGAA
1 TTATATATAAATATATATGAA
* **
2926278 CTATATATAAACTATATAGTTTA
1 TTATATATAAA-TATATA-TGAA
*
2926301 TTA-ATATAAAT-TATAT-AGT
1 TTATATATAAATATATATGA-A
2926320 TTATATATAAATTATATATGAA
1 TTATATATAAA-TATATATGAA
*
2926342 TTATATTTAAATATATA
1 TTATATATAAATATATA
2926359 CAACTTATAA
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
19 11 0.17
20 13 0.21
21 12 0.19
22 22 0.35
23 5 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (21 bp):
TTATATATAAATATATATGAA
Found at i:2927267 original size:31 final size:31
Alignment explanation
Indices: 2927202--2927273 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
2927192 AGCCTAAGAT
* * *
2927202 CCTACCCAAGAAAGTTCTCGGGGCCACGGGG
1 CCTACCCAAGAAAGATCTCGGGGCCACAGAG
* * *
2927233 CCTACCCATGAAAGATCTCGGGGCCGCATAG
1 CCTACCCAAGAAAGATCTCGGGGCCACAGAG
2927264 CCTACCCAAG
1 CCTACCCAAG
2927274 GGTTGCCTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.25, C:0.35, G:0.26, T:0.14
Consensus pattern (31 bp):
CCTACCCAAGAAAGATCTCGGGGCCACAGAG
Found at i:2927348 original size:31 final size:31
Alignment explanation
Indices: 2927313--2927414 Score: 89
Period size: 31 Copynumber: 3.2 Consensus size: 31
2927303 GTCGGTGATT
*
2927313 AACCTATAAAAGGAATTATCAGTAGCGACTG
1 AACCTATAAAAGGAATTACCAGTAGCGACTG
* * * * *
2927344 AACCTGCCAGAGATAGGAATTACCAGTCTGTG-CAG
1 AACCT---ATA-AAAGGAATTACCAGT-AGCGACTG
*
2927379 AACCTATATAAGGAATTACCAGTAGCGACTG
1 AACCTATAAAAGGAATTACCAGTAGCGACTG
2927410 AACCT
1 AACCT
2927415 GTCAGAGTCT
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
30 2 0.04
31 25 0.47
32 2 0.04
34 2 0.04
35 20 0.38
36 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (31 bp):
AACCTATAAAAGGAATTACCAGTAGCGACTG
Found at i:2933699 original size:22 final size:23
Alignment explanation
Indices: 2933671--2933739 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
2933661 CTAAAAACCT
**
2933671 TAAAAATGCTCAAGATAATTC-C
1 TAAAAATGCAAAAGATAATTCTC
*
2933693 TAAAAATTACAAAAGATAATTCTC
1 TAAAAA-TGCAAAAGATAATTCTC
*
2933717 TAAAATTGCAAAAGATAATTCTC
1 TAAAAATGCAAAAGATAATTCTC
2933740 ATAATTGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
22 6 0.15
23 28 0.70
24 6 0.15
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.29
Consensus pattern (23 bp):
TAAAAATGCAAAAGATAATTCTC
Found at i:2933708 original size:23 final size:23
Alignment explanation
Indices: 2933682--2933739 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 23
2933672 AAAAATGCTC
2933682 AAGATAATTC-CTAAAAATTACAA
1 AAGATAATTCTCT-AAAATTACAA
*
2933705 AAGATAATTCTCTAAAATTGCAA
1 AAGATAATTCTCTAAAATTACAA
2933728 AAGATAATTCTC
1 AAGATAATTCTC
2933740 ATAATTGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 31 0.94
24 2 0.06
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (23 bp):
AAGATAATTCTCTAAAATTACAA
Found at i:2935496 original size:11 final size:11
Alignment explanation
Indices: 2935473--2935510 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2935463 TCAACCTAAA
*
2935473 TTTT-TTTATT
1 TTTTATTTAAT
2935483 TTTTATTTAAT
1 TTTTATTTAAT
2935494 TTTTATTTAAT
1 TTTTATTTAAT
2935505 TCTTTA
1 T-TTTA
2935511 AATAATTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATTTAAT
Found at i:2936005 original size:16 final size:16
Alignment explanation
Indices: 2935972--2936025 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
2935962 TGCAAATGAT
** *
2935972 CTGACTTGTTATTGAC
1 CTGACTTGACATTTAC
*
2935988 CTGATTTGACATTTAC
1 CTGACTTGACATTTAC
2936004 CTGACTTGACATTTAC
1 CTGACTTGACATTTAC
2936020 CTGACT
1 CTGACT
2936026 CATATTACCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (16 bp):
CTGACTTGACATTTAC
Found at i:2936421 original size:2 final size:2
Alignment explanation
Indices: 2936414--2937061 Score: 95
Period size: 2 Copynumber: 320.5 Consensus size: 2
2936404 AAATTAAAGA
* * *
2936414 AT AT AT AT AT AT AT AT AT AA AT CAT AT AC AC AT AT AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
* *
2936455 AT AT AA AGT AT A- AGT AT AT -T AT AT AT AT AA AGT AT A- AT -T
1 AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * * * * *
2936494 AT AA AG A- AT AA AGT AT GT A- AGT AT AT AA AGT AT AT AT AC AT
1 AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT A-T AT AT AT AT AT
* *
2936535 AT AT A- AT A- AT AA AA AGT AT A- AGT AT AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT
* * *
2936575 AT AT AT AT AT AT AT AT AT AT A- AGT AT A- AT -T AT AA AG ACT AA
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT
* * * *
2936616 AGT AT GT A- AGC AT AT A- AT AT AA AGT AT AT ACT -T AT AT A- AA
1 A-T AT AT AT A-T AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT
*
2936656 AT AT AT A- AGT ACT AA AT AT A- AGT AT AT A- AGT AT AT A- AT AT
1 AT AT AT AT A-T A-T AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT
* * * * * *
2936696 AA AGT AT AT A- AGT GT GT GT GT AT AT AT AT AT AT AT AA AGT -T
1 AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * *
2936737 TT AGT AT AA ACT AT AT AT AC AT AT AT A- AT A- AT AT AA AGT AT
1 AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
*
2936778 A- AGT AT AT -T AT AT AT AT AT AT AT AT AA ACT AT AT AGT AT A-
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT
* * * * *
2936818 AA AGT AT AT AA ACT AT AGT AT A- AA AGT AT AT AC AT AT AA AGT AT
1 AT A-T AT AT AT A-T AT A-T AT AT AT A-T AT AT AT AT AT AT A-T AT
* * *
2936862 A- AGT AT AT AT AA ACT AT AA AT -T AT AT AT AT AT AGT -T TT AGT
1 AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT A-T
* *
2936903 AT A- AT AT AA AGT AT AT A- AGT AT AT AC AT AT A- AGT AT A- AT
1 AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT
* *
2936942 AT A- AGT AT AT AT AT AT AT AT AT AT AT AT A- AA ACT AT AA AGT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T
* * *
2936983 AT A- AGT AT AT AA AT AT AT AT A- AGT AT AA ACT AT AA ACT AT A-
1 AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT A-T AT AT
* * *
2937024 AGT AT AT AT AA ACT AT AA AGT AT AT AT AT AT GT AT AT A
1 A-T AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT A
2937062 AGTTATAAGT
Statistics
Matches: 473, Mismatches: 81, Indels: 184
0.64 0.11 0.25
Matches are distributed among these distances:
1 43 0.09
2 376 0.79
3 54 0.11
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (2 bp):
AT
Found at i:2936523 original size:111 final size:111
Alignment explanation
Indices: 2936408--2936825 Score: 310
Period size: 111 Copynumber: 3.7 Consensus size: 111
2936398 TAGTTTAAAT
* *
2936408 TAAAGAATATATATATATAT-AT-ATAAATCA-TATACACATATATAATAATATAAAGTATA-AG
1 TAAAGAATATATACATATATAATAATAAA-AAGTATA-A-ATATATAAT-ATATAAA-TATATA-
*
2936469 TATAT-TATATATATA-AAGTATAATTATAAAGAATAAAGTATGTAAGTATA
60 TATATATATATATATATAAGTATAATTATAAAGAATAAAGTATGTAAGCATA
* * * *
2936519 TAAAGTATATATACATATATAATAATAAAAAGTATAAGTATATTATATATATATATATATATATA
1 TAAAGAATATATACATATATAATAATAAAAAGTATAAATATATAATATATAAATATATATATATA
*
2936584 TATATATATATAAGTATAATTATAAAGACTAAAGTATGTAAGCATA
66 TATATATATATAAGTATAATTATAAAGAATAAAGTATGTAAGCATA
* * * * *
2936630 TAATATAAAGTATATACTTATATAA-AATATATAAGTACTAAATATA-AGTATATAAGTATATA-
1 TAA-A-GAA-TATATACATATATAATAATA-AAAAGTA-TAAATATATAATATATAAATATATAT
* * ** * * * *
2936692 ATATAAAGTATATAAGTGTGTGTGTATATATATATA-TATAAAGT-T-TTAG--TA
61 ATATATA-TATAT-A-TATAAGTATA-AT-TATAAAGAATAAAGTATGTAAGCATA
** * * * *
2936743 TAAACTATATATACATATATAATAATATAAAGTATAAGTATAT--TATATATATATATATATAAA
1 TAAAGAATATATACATATATAATAATAAAAAGTATAAATATATAATATATAAATATATATATATA
*
2936806 CTATATAGTATAAAAGTATA
66 -TATATA-TATATAAGTATA
2936826 TAAACTATAG
Statistics
Matches: 245, Mismatches: 41, Indels: 45
0.74 0.12 0.14
Matches are distributed among these distances:
108 17 0.07
109 25 0.10
110 38 0.16
111 66 0.27
112 6 0.02
113 25 0.10
114 37 0.15
115 11 0.04
116 7 0.03
117 8 0.03
118 5 0.02
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.38
Consensus pattern (111 bp):
TAAAGAATATATACATATATAATAATAAAAAGTATAAATATATAATATATAAATATATATATATA
TATATATATATAAGTATAATTATAAAGAATAAAGTATGTAAGCATA
Found at i:2936645 original size:60 final size:59
Alignment explanation
Indices: 2936466--2936705 Score: 191
Period size: 60 Copynumber: 4.2 Consensus size: 59
2936456 TATAAAGTAT
2936466 AAGTATAT-TATATATATAAAGTATAATTATAAAGAATAAAGTATGTAAGTATATAA-AGTA
1 AAGTATATATATATATAT-AAGTATAATTATAAAG-ATAAAGTATGTAAGTATATAATA-TA
* * * * * * *
2936526 TA-TATACATATATA-ATAA-TAAAAAGTAT-AAG-TATATTATAT-A-TATAT-ATATA
1 AAGTATATATATATATATAAGT-ATAATTATAAAGATAAAGTATGTAAGTATATAATATA
* *
2936578 TA-TATATATATATATATAAGTATAATTATAAAGACTAAAGTATGTAAGCATATAATATA
1 AAGTATATATATATATATAAGTATAATTATAAAGA-TAAAGTATGTAAGTATATAATATA
* * * * *
2936637 AAGTATATACT-TATATAAAATATATAAGTACTAAATAT-AAGTATATAAGTATATAATATA
1 AAGTATATA-TATATATATAA-GTATAATTA-TAAAGATAAAGTATGTAAGTATATAATATA
2936697 AAGTATATA
1 AAGTATATA
2936706 AGTGTGTGTG
Statistics
Matches: 144, Mismatches: 21, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
52 16 0.11
53 16 0.11
54 5 0.03
55 7 0.05
56 7 0.05
57 5 0.03
58 12 0.08
59 12 0.08
60 50 0.35
61 9 0.06
62 5 0.03
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (59 bp):
AAGTATATATATATATATAAGTATAATTATAAAGATAAAGTATGTAAGTATATAATATA
Found at i:2936940 original size:161 final size:157
Alignment explanation
Indices: 2936443--2937054 Score: 429
Period size: 161 Copynumber: 3.9 Consensus size: 157
2936433 AATCATATAC
*
2936443 ACATATATAATAATATAAAG-TATAAGTATATTATATATATAAAGTATAATTATAAAGA--ATAA
1 ACATATATAATAATATAAAGATATAAGTATA-TATATATATATA-TAT-A-TATAAA-ACTATAA
* * * * *
2936505 AGTATGTAAGTATATAAAGTATATATACATATATAATAATAAAAAGTATAAGTATAT-TATA-TA
61 AGTA--TAAGTATATAAA-TATATATA-A-GTATAA-ACTATAAACTATAAGTATATATAAACTA
* * * *
2936568 TATA-TATATATATATA--TATA-TATATA-TAAGTAT
120 TAAAGTATATATATATAGTTTTAGTATAAACTAAATAT
* * * *
2936601 A-AT-TATAA-AGA-CTAAAGTATGTAAGCATATAATATAAAGTATATACTTATATAAAA-TATA
1 ACATATATAATA-ATATAAAG-ATATAAGTATAT-ATATATA-TATATA--TATATAAAACTATA
* * * * * *
2936661 TAAGTACTAA--ATAT-AA-GTATATAAGTATATAA-TATAAAGTATATAAGTGTGTGT---GTA
60 -AAGTA-TAAGTATATAAATATATATAAGTATA-AACTATAAA--CTATAAGTATATATAAACTA
* * *
2936718 TATA-TATATATATAAAGTTTTAGTATAAACTATATAT
120 TAAAGTATATATATATAGTTTTAGTATAAACTAAATAT
*
2936755 ACATATATAATAATATAAAG-TATAAGTATAT-TATATATATATATATAT-AAACTATATAGTAT
1 ACATATATAATAATATAAAGATATAAGTATATATATATATATATATATATAAAACTATAAAGTAT
* *
2936817 AAAAGTATATAAACTATAGTATAAAAGTATATACATATAAAGTATAAGTATATATAAACTATAAA
66 --AAGTATATAAA-TATA-TAT--AAGTATAAAC-TATAAACTATAAGTATATATAAACTATAAA
*
2936882 TTATATATATATAGTTTTAGTATAATA-TAAAGTAT
124 GTATATATATATAGTTTTAGTATAA-ACTAAA-TAT
* *
2936917 ATA-AGTAT-ATACATATAAGTATAATATAAGTATATATATATATATATATATATAAAACTATAA
1 ACATA-TATAATA-ATATAA--A-GATATAAGTATATATATATATATATATATATAAAACTATAA
2936980 AGTATAAGTATATAAATATATATAAGTATAAACTATAAACTATAAGTATATATAAACTATAAAGT
61 AGTATAAGTATATAAATATATATAAGTATAAACTATAAACTATAAGTATATATAAACTATAAAGT
2937045 ATATATATAT
126 ATATATATAT
2937055 GTATATAAGT
Statistics
Matches: 367, Mismatches: 38, Indels: 95
0.73 0.08 0.19
Matches are distributed among these distances:
148 1 0.00
149 12 0.03
150 33 0.09
151 11 0.03
152 20 0.05
153 12 0.03
154 8 0.02
155 23 0.06
156 17 0.05
157 47 0.13
158 17 0.05
159 7 0.02
160 5 0.01
161 70 0.19
162 24 0.07
164 4 0.01
165 4 0.01
166 22 0.06
167 17 0.05
168 13 0.04
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.38
Consensus pattern (157 bp):
ACATATATAATAATATAAAGATATAAGTATATATATATATATATATATATAAAACTATAAAGTAT
AAGTATATAAATATATATAAGTATAAACTATAAACTATAAGTATATATAAACTATAAAGTATATA
TATATAGTTTTAGTATAAACTAAATAT
Found at i:2937096 original size:22 final size:22
Alignment explanation
Indices: 2936800--2937223 Score: 117
Period size: 22 Copynumber: 19.8 Consensus size: 22
2936790 TATATATATA
* * *
2936800 TATAAACTATATAGTATAAAAG
1 TATATACTATAAAGTATTAAAG
*
2936822 TATATAAACTAT--AGTATAAAAG
1 TATAT--ACTATAAAGTATTAAAG
2936844 TATATACATATAAAGTA-T-AAG
1 TATATAC-TATAAAGTATTAAAG
* *
2936865 --TATA-TATAAACTA-TAAAT
1 TATATACTATAAAGTATTAAAG
* *
2936883 TATATA-TATATAGT-TT-TAG
1 TATATACTATAAAGTATTAAAG
2936902 TATA-A-TATAAAGTA-TATAAG
1 TATATACTATAAAGTATTA-AAG
2936922 TATATAC-ATATAAGTATAATATAAG
1 TATATACTATA-AAGTAT--TA-AAG
* *
2936947 TATATA-TATATA-TATATATA-
1 TATATACTATAAAGTAT-TAAAG
*
2936967 TATAAAACTATAAAGTA-T-AAG
1 TAT-ATACTATAAAGTATTAAAG
* *
2936988 TATATAAATATATATAAGTA-TAAAC
1 TATAT--A-CTATA-AAGTATTAAAG
*
2937013 TATAAACTAT-AAGTA-T--A-
1 TATATACTATAAAGTATTAAAG
*
2937030 TATAAACTATAAAGTATATATATATG
1 TATATACTATAAAGTAT-TA-A-A-G
*
2937056 TATATAAGT-TATAAGTATTAAAG
1 TATAT-ACTATA-AAGTATTAAAG
*
2937079 TATATACTATAAAGTATTAAAC
1 TATATACTATAAAGTATTAAAG
*
2937101 TATATAATATAAA-TATTAAA-
1 TATATACTATAAAGTATTAAAG
* * *
2937121 TATAAAGTATACCA-TA-TAAAG
1 TATATACTATA-AAGTATTAAAG
* * *
2937142 TATTAAAGTATATAAATA-TAAA-
1 TA-TATACTATA-AAGTATTAAAG
* *
2937164 TATTTAATATAAAGTA-TATAAG
1 TATATACTATAAAGTATTA-AAG
* * *
2937186 TATATAATATAAATTATTAAAT
1 TATATACTATAAAGTATTAAAG
*
2937208 TATATAATAT-AAGTAT
1 TATATACTATAAAGTAT
2937224 ACAATATAAA
Statistics
Matches: 317, Mismatches: 38, Indels: 95
0.70 0.08 0.21
Matches are distributed among these distances:
17 19 0.06
18 17 0.05
19 9 0.03
20 50 0.16
21 42 0.13
22 98 0.31
23 30 0.09
24 14 0.04
25 22 0.07
26 8 0.03
27 8 0.03
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (22 bp):
TATATACTATAAAGTATTAAAG
Found at i:2937106 original size:107 final size:103
Alignment explanation
Indices: 2936906--2937264 Score: 125
Period size: 107 Copynumber: 3.4 Consensus size: 103
2936896 TTTTAGTATA
* *
2936906 ATATAAAGTATATAAGTATATACATATA-AGTATAATATA-AGTATAT-A-TATATATATATATA
1 ATATAAA-TATA-AAGTATATATATATATA-TATAATATAAAGTATATAAGTATATA-ATATAAA
* * *
2936967 -TATAAAACTATA-AAGTATAAGTATATAA-AT-ATATATAAGT
62 GTATTAAACTATATAA-TATAAGTATA-AATATAAAATATAAAT
* * *
2937007 ATA-AACTATAAACTATA-AGTATATATA-A-ACTATAAAGTATATATATATGTATATAAGT-TA
1 ATATAAATATAAAGTATATA-TATATATATATAATATAAAG--TATATA-A-GTATATAA-TATA
* * *
2937067 TAAGTATTAAAGTATATACTATAAAGTATTAAACTATATAATATAAAT
60 -AAGTATTAAACTATATAATAT-AAGTA-TAAA-TATAAAATATAAAT
* * * *
2937115 AT-TAAATATAAAGTATACCATATAAAGTAT-TAAAGTATATAA--ATATAAATATTTAATATAA
1 ATATAAATATAAAGTATA-TATATATA-TATAT-AA-TATA-AAGTATATAAGTATATAATATAA
* * * *
2937176 AGTA-TATAAGTATATAATATAAATTATTAAATTATATAATATAAGT
61 AGTATTA-AACTATATAATAT-AAGTA-TAAA-TATAAAATATAAAT
* *
2937222 ATA-CAATATAAA--ATAT-TAAAGTATATA-AATATAAAGTTATATA
1 ATATAAATATAAAGTATATATATA-TATATATAATATAAAG-TATATA
2937265 TATTAAATTA
Statistics
Matches: 198, Mismatches: 25, Indels: 68
0.68 0.09 0.23
Matches are distributed among these distances:
96 5 0.03
97 4 0.02
98 11 0.06
99 10 0.05
100 4 0.02
101 8 0.04
102 5 0.03
103 19 0.10
104 14 0.07
105 11 0.06
106 4 0.02
107 53 0.27
108 29 0.15
109 6 0.03
110 8 0.04
112 1 0.01
113 4 0.02
114 2 0.01
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (103 bp):
ATATAAATATAAAGTATATATATATATATATAATATAAAGTATATAAGTATATAATATAAAGTAT
TAAACTATATAATATAAGTATAAATATAAAATATAAAT
Found at i:2937149 original size:57 final size:55
Alignment explanation
Indices: 2937088--2937258 Score: 166
Period size: 57 Copynumber: 3.0 Consensus size: 55
2937078 GTATATACTA
*
2937088 TAAAGTATTAAACTATATAATATAAATATTAAATATAAAGTATACCATATAAAGTAT
1 TAAAGTATTAAA-TATA-AATATAAATATTAAATATAAAGTATACAATATAAAGTAT
* * *
2937145 TAAAGTATATAAATATAAATATTTAATA-TAAAGTATATAAGTATATAATATAAATTAT
1 TAAAGTAT-TAAATATAAATA-TAAATATTAAA-TATA-AAGTATACAATATAAAGTAT
* * * *
2937203 TAAATTA-TATAATATAAGTATACAATATAAAATATTAAAGTATATAAATATAAAGT
1 TAAAGTATTA-AATATAAATATA-AATATTAAATA-TAAAGTATA-CAATATAAAGT
2937259 TATATATATT
Statistics
Matches: 95, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
56 11 0.12
57 43 0.45
58 41 0.43
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (55 bp):
TAAAGTATTAAATATAAATATAAATATTAAATATAAAGTATACAATATAAAGTAT
Found at i:2937188 original size:8 final size:8
Alignment explanation
Indices: 2936487--2937264 Score: 122
Period size: 8 Copynumber: 103.5 Consensus size: 8
2936477 ATATATAAAG
*
2936487 TATAATTA
1 TATAAGTA
*
2936495 TA-AAGAA
1 TATAAGTA
2936502 TA-AAGTA
1 TATAAGTA
*
2936509 TGTAAGTA
1 TATAAGTA
2936517 TATAAAGTA
1 TAT-AAGTA
*
2936526 TATATACATA
1 TATA-A-GTA
2936536 TATAA-TA
1 TATAAGTA
**
2936543 -ATAAAAA
1 TATAAGTA
2936550 GTATAAGTA
1 -TATAAGTA
2936559 TATTATA-TA
1 TA-TA-AGTA
2936568 TATATA-TA
1 TATA-AGTA
2936576 TATATA-TA
1 TATA-AGTA
2936584 TATATA-TA
1 TATA-AGTA
2936592 TATAAG--
1 TATAAGTA
*
2936598 TATAATTA
1 TATAAGTA
2936606 TA-AAG-A
1 TATAAGTA
2936612 CTA-AAGTA
1 -TATAAGTA
* *
2936620 TGTAAGCA
1 TATAAGTA
2936628 TATAA-TA
1 TATAAGTA
2936635 TA-AAGTA
1 TATAAGTA
**
2936642 TATACTTA
1 TATAAGTA
*
2936650 TATAAAATA
1 TAT-AAGTA
2936659 TATAAGTA
1 TATAAGTA
*
2936667 -CTAA--A
1 TATAAGTA
2936672 TATAAGTA
1 TATAAGTA
2936680 TATAAGTA
1 TATAAGTA
2936688 TATAA-TA
1 TATAAGTA
2936695 TA-AAGTA
1 TATAAGTA
*
2936702 TATAAGTG
1 TATAAGTA
* **
2936710 TGTGTGTA
1 TATAAGTA
2936718 TAT-A-TA
1 TATAAGTA
2936724 TAT-A-TA
1 TATAAGTA
2936730 TA-AAGT-
1 TATAAGTA
*
2936736 T-TTAGTA
1 TATAAGTA
*
2936743 TA-AACTA
1 TATAAGTA
*
2936750 TATATACATA
1 TATA-A-GTA
2936760 TATAA-TAA
1 TATAAGT-A
2936768 TATAA--A
1 TATAAGTA
2936774 GTATAAGTA
1 -TATAAGTA
2936783 TATTATA-TA
1 TA-TA-AGTA
2936792 TATATA-TA
1 TATA-AGTA
*
2936800 TATAAACTA
1 TAT-AAGTA
2936809 TAT-AGTA
1 TATAAGTA
*
2936816 TAAAAGTA
1 TATAAGTA
2936824 TATAA--A
1 TATAAGTA
2936830 CTAT-AGTA
1 -TATAAGTA
*
2936838 TAAAAGTA
1 TATAAGTA
2936846 TATACA-TA
1 TATA-AGTA
2936854 TA-AAG--
1 TATAAGTA
2936859 TATAAGTA
1 TATAAGTA
*
2936867 TATATA-AA
1 TATA-AGTA
*
2936875 CTATAAAT-
1 -TATAAGTA
2936883 TAT-A-TA
1 TATAAGTA
2936889 TATATAGTTTTA
1 TATA-AG---TA
2936901 GTATAA-TA
1 -TATAAGTA
2936909 TA-AAGTA
1 TATAAGTA
2936916 TATAAGTA
1 TATAAGTA
*
2936924 TAT-A-CA
1 TATAAGTA
2936930 TATAAGTATAA
1 TATAAG--T-A
2936941 TATAAGTA
1 TATAAGTA
2936949 TAT-A-TA
1 TATAAGTA
2936955 TAT-A-TA
1 TATAAGTA
2936961 TATATA-TA
1 TATA-AGTA
* *
2936969 TAAAACTA
1 TATAAGTA
2936977 TA-AAG--
1 TATAAGTA
2936982 TATAAGTA
1 TATAAGTA
*
2936990 TATAAATATA
1 TAT-AA-GTA
2937000 TATAAGTA
1 TATAAGTA
*
2937008 TA-AACTA
1 TATAAGTA
*
2937015 TA-AA--C
1 TATAAGTA
2937020 TATAAGTA
1 TATAAGTA
*
2937028 TATATA-AA
1 TATA-AGTA
2937036 CTATAAAGTA
1 -TAT-AAGTA
2937046 TAT-A-TA
1 TATAAGTA
2937052 TAT--GTA
1 TATAAGTA
2937058 TATAAGT-
1 TATAAGTA
2937065 TATAAGTA
1 TATAAGTA
2937073 T-TAAAGTA
1 TAT-AAGTA
*
2937081 TAT-ACTA
1 TATAAGTA
2937088 TA-AAGTA
1 TATAAGTA
*
2937095 T-TAAACTA
1 TAT-AAGTA
2937103 TATAA-TA
1 TATAAGTA
2937110 TA-AA-TA
1 TATAAGTA
*
2937116 T-TAAATA
1 TATAAGTA
2937123 TA-AAGTA
1 TATAAGTA
**
2937130 TACCA-TA
1 TATAAGTA
2937137 TA-AAGTA
1 TATAAGTA
2937144 T-TAAAGTA
1 TAT-AAGTA
2937152 TATAA--A
1 TATAAGTA
*
2937158 TATAAATA
1 TATAAGTA
*
2937166 TTTAA-TA
1 TATAAGTA
2937173 TA-AAGTA
1 TATAAGTA
2937180 TATAAGTA
1 TATAAGTA
2937188 TATAA-TA
1 TATAAGTA
*
2937195 TA-AATTA
1 TATAAGTA
*
2937202 T-TAAAT-
1 TATAAGTA
2937208 TAT-A-TAA
1 TATAAGT-A
2937215 TATAAGTA
1 TATAAGTA
*
2937223 TACAA-TA
1 TATAAGTA
*
2937230 TA-AAATA
1 TATAAGTA
2937237 T-TAAAGTA
1 TAT-AAGTA
*
2937245 TATAAATA
1 TATAAGTA
2937253 TA-AAGTTA
1 TATAAG-TA
2937261 TATA
1 TATA
2937265 TATTAAATTA
Statistics
Matches: 589, Mismatches: 64, Indels: 233
0.66 0.07 0.26
Matches are distributed among these distances:
5 9 0.02
6 97 0.16
7 155 0.26
8 226 0.38
9 67 0.11
10 21 0.04
11 7 0.01
12 3 0.01
13 4 0.01
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (8 bp):
TATAAGTA
Found at i:2937266 original size:35 final size:35
Alignment explanation
Indices: 2936900--2937272 Score: 168
Period size: 35 Copynumber: 10.5 Consensus size: 35
2936890 ATATAGTTTT
* * *
2936900 AGTATA-ATATAAAGTATATAAGTATATACATAT-A
1 AGTATATATATAAAATAT-TAAATATATAAATATAA
* * * *
2936934 AGTATA-ATAT-AAGTA-TATATATATATATATAT
1 AGTATATATATAAAATATTAAATATATAAATATAA
* * *
2936966 A-TATAAAACTATAAAGTA-TAAGTATATAAATATATATA
1 AGTAT-ATA-TATAAAATATTAAATATAT-AA-ATATA-A
* *
2937004 AGTATAAACTATAAACTA-TAAGTATATATAAACTATAA
1 AGTATATA-TATAAAATATTAA--ATATATAAA-TATAA
** * *
2937042 AGTATATATAT-ATGTATATAAGT-TATAAGTATTAA
1 AGTATATATATAAAATAT-TAAATATATAAATA-TAA
*
2937077 AGTATATACTATAAAGTATTAAACTATAT-AATATAA
1 AGTATATA-TATAAAATATTAAA-TATATAAATATAA
* * * *
2937113 A-TATTAAATATAAAGTA-TACCATATA-AAGTATTAA
1 AGTA-TATATATAAAATATTA-AATATATAAATA-TAA
* * *
2937148 AGTATATAAATATAAATATTTAATATA-AAGTATATA
1 AGTATATATATA-AAATATTAAATATATAAATATA-A
*
2937184 AGTATATAATATAAATTATTAAAT-TATATAATAT-A
1 AGTATAT-ATATAAAATATTAAATATATA-AATATAA
*
2937219 AGTATACAATATAAAATATTAAAGTATATAAATATAA
1 AGTATA-TATATAAAATATTAAA-TATATAAATATAA
*
2937256 AGTTATATATATTAAAT
1 AG-TATATATATAAAAT
2937273 TATAAAATTC
Statistics
Matches: 270, Mismatches: 34, Indels: 67
0.73 0.09 0.18
Matches are distributed among these distances:
31 15 0.06
32 2 0.01
33 6 0.02
34 24 0.09
35 75 0.28
36 58 0.21
37 41 0.15
38 35 0.13
39 9 0.03
40 5 0.02
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.38
Consensus pattern (35 bp):
AGTATATATATAAAATATTAAATATATAAATATAA
Found at i:2937494 original size:82 final size:82
Alignment explanation
Indices: 2937251--2937497 Score: 397
Period size: 82 Copynumber: 3.0 Consensus size: 82
2937241 AGTATATAAA
* *
2937251 TATAAAGTTATATATATTAAATTATAAAATTCCTAGGATCAAATTGAAATAAAATAAAAATTTAA
1 TATATAGTTATATATATTAAATTATAAAATTCGTAGGATCAAATTGAAATAAAATAAAAATTTAA
*
2937316 AGCCTAAATTAATACAT
66 AGCCTAAATTAATATAT
* *
2937333 TATGTAGTTATATATATTAAGTTATAAAATTCGTAGGATCAAATTGAAATAAAATAAAAATTTAA
1 TATATAGTTATATATATTAAATTATAAAATTCGTAGGATCAAATTGAAATAAAATAAAAATTTAA
*
2937398 AGCCTACATTAATATAT
66 AGCCTAAATTAATATAT
* * *
2937415 TATATAGTTGTATATATTAAATTATAAAATTTGTAGGATCAAATTAAAAT-AAATAAAAAATTTA
1 TATATAGTTATATATATTAAATTATAAAATTCGTAGGATCAAATTGAAATAAAAT-AAAAATTTA
2937479 AAGCCTAAATTAATATAT
65 AAGCCTAAATTAATATAT
2937497 T
1 T
2937498 TTTGGACTAA
Statistics
Matches: 152, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
81 4 0.03
82 148 0.97
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (82 bp):
TATATAGTTATATATATTAAATTATAAAATTCGTAGGATCAAATTGAAATAAAATAAAAATTTAA
AGCCTAAATTAATATAT
Found at i:2938938 original size:21 final size:21
Alignment explanation
Indices: 2938912--2938963 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
2938902 TTAGGTAAAT
2938912 GTCAGATCATGTCAATAACAA
1 GTCAGATCATGTCAATAACAA
*
2938933 GTCAGATCAGGTCAATAACAA
1 GTCAGATCATGTCAATAACAA
*
2938954 GTTAGATCAT
1 GTCAGATCAT
2938964 TTACATGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (21 bp):
GTCAGATCATGTCAATAACAA
Found at i:2941520 original size:23 final size:23
Alignment explanation
Indices: 2941494--2941571 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
2941484 CACCACAGCT
2941494 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
2941517 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
2941540 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
2941563 TATAATAAT
1 CAT-ATAAT
2941572 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:2941749 original size:103 final size:103
Alignment explanation
Indices: 2941578--2941898 Score: 579
Period size: 103 Copynumber: 3.1 Consensus size: 103
2941568 TAATGTCCAT
* * *
2941578 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
2941643 GACTTCACACATGTTCCAAAAAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2941681 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
2941746 GACTTCACACATGATCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2941784 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
2941849 GACTTTACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
2941887 AAGGACTACATA
1 AAGGACCACATA
2941899 GACCCTCGAC
Statistics
Matches: 210, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 210 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2946514 original size:23 final size:23
Alignment explanation
Indices: 2946488--2946565 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
2946478 CACCACAACT
2946488 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
2946511 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
2946534 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
2946557 TATAATAAT
1 CAT-ATAAT
2946566 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:2946738 original size:103 final size:103
Alignment explanation
Indices: 2946572--2946883 Score: 525
Period size: 103 Copynumber: 3.1 Consensus size: 103
2946562 TAATGTCCAT
2946572 AAGGACCACATATCA-TCCTTAAGAATCATATACATAT----AGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
2946632 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2946670 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
* *
2946735 GACTTCACACATGTTCTAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
2946773 AAGGACCAAATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
2946838 GACTTCACACATTTTCCAAAG---ACATATATGT-CCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2946872 AAGGACCACATA
1 AAGGACCACATA
2946884 GACCCTCGAC
Statistics
Matches: 202, Mismatches: 7, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
98 15 0.07
99 36 0.18
100 9 0.04
103 142 0.70
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2958155 original size:11 final size:11
Alignment explanation
Indices: 2958139--2958172 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2958129 CACGATTTTC
2958139 GAGCCTAATTT
1 GAGCCTAATTT
2958150 GAGCCTAATTT
1 GAGCCTAATTT
**
2958161 GTTCCTAATTT
1 GAGCCTAATTT
2958172 G
1 G
2958173 TTGGTTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (11 bp):
GAGCCTAATTT
Found at i:2959790 original size:19 final size:18
Alignment explanation
Indices: 2959768--2959807 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2959758 TTTTTCTTTC
2959768 TTTTATAAAGTTTTTTACT
1 TTTTATAAAG-TTTTTACT
* *
2959787 TTTTTTTAAGTTTTTACT
1 TTTTATAAAGTTTTTACT
2959805 TTT
1 TTT
2959808 CAAGTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTATAAAGTTTTTACT
Found at i:2960496 original size:31 final size:31
Alignment explanation
Indices: 2960461--2960523 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
2960451 AAACCTCCCC
2960461 ACTTTTTTACTTTATTTTGCAATTCACGCCT
1 ACTTTTTTACTTTATTTTGCAATTCACGCCT
*
2960492 ACTTTTTTGCTTTATTTTGCAATTCACGCCT
1 ACTTTTTTACTTTATTTTGCAATTCACGCCT
2960523 A
1 A
2960524 GCCCCAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.22, G:0.08, T:0.51
Consensus pattern (31 bp):
ACTTTTTTACTTTATTTTGCAATTCACGCCT
Found at i:2960998 original size:17 final size:16
Alignment explanation
Indices: 2960957--2960998 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
2960947 AAATACCTTT
2960957 TAAAATAATTTTAAGA
1 TAAAATAATTTTAAGA
2960973 -AAAATAATTTTAAAAGA
1 TAAAATAATTTT--AAGA
2960990 TAAAA-AATT
1 TAAAATAATT
2960999 GATATCCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.48
17 8 0.35
18 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
TAAAATAATTTTAAGA
Found at i:2963119 original size:3 final size:3
Alignment explanation
Indices: 2963113--2963166 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
2963103 TTTTTGTATG
* * *
2963113 TAA TAA TCA TAT TAA TTAA TTAA TTAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA -TAA -TAA -TAA TAA TAA TAA TAA TAA TAA TAA
2963161 TAA TAA
1 TAA TAA
2963167 GTTAAAATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
3 33 0.75
4 11 0.25
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:2963603 original size:134 final size:134
Alignment explanation
Indices: 2963383--2963797 Score: 534
Period size: 134 Copynumber: 3.1 Consensus size: 134
2963373 TGTTCTTCAG
* * * * *
2963383 GGAAAATTGAATCGAAAGTGACTCGCTTCACTGCTCTTTAGGAAGACCAAATCTTAAAGAATAAG
1 GGAAGATTGAATCG-AATTGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTTAAAGAAGAAG
* * * *
2963448 AATATGCTCCACTAATTTTTAGGGGAGATCAAACTCGAGGAAATTTTGATCCACTTCACTGA-T-
65 AATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGGAAATTTTGATCCACTTCACTGACTC
2963511 TTAAAA
130 TT-AAA
* *
2963517 GGAAGATTGAATCGAATTTGATTTGCTTCACTACTCTTTAGGAAGACCAAATCTTAAAGAAGAAT
1 GGAAGATTGAATCGAA-TTGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTTAAAGAAGAAG
* * *
2963582 AATCTGCTCCACTACTCTTTAGGGGGGATCAGACTCAAGGAAATTTTGATCCACTTCA-TTACTC
65 AATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGGAAATTTTGATCCACTTCACTGACTC
* *
2963646 TTCAG
130 TTAAA
* * * *
2963651 GGAAGATTGAATTAGAATTGATTTGCTTCACTGCTCTTCAGGAAGGCCAAATCTGAAAGAAGAAG
1 GGAAGATTGAA-TCGAATTGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTTAAAGAAGAAG
*
2963716 AATCTGCTCCGCTACTCTTTAGGGGAGATCAGACTCGA-GAAATCTTTGATCCACTTCACTG-CT
65 AATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGGAAAT-TTTGATCCACTTCACTGACT
* * *
2963779 ATTCAG
129 CTTAAA
2963785 GGAAGATTGAATC
1 GGAAGATTGAATC
2963798 TGAAAGTCAA
Statistics
Matches: 247, Mismatches: 28, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
133 10 0.04
134 230 0.93
135 7 0.03
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (134 bp):
GGAAGATTGAATCGAATTGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTTAAAGAAGAAGA
ATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGGAAATTTTGATCCACTTCACTGACTCT
TAAA
Found at i:2964512 original size:45 final size:45
Alignment explanation
Indices: 2964358--2964698 Score: 254
Period size: 45 Copynumber: 7.4 Consensus size: 45
2964348 TACTGAATAG
* * *
2964358 TTGACTCCTCTCCACGAGAAAGTCAAGTTGAGAATGACATCACTAAAAGG
1 TTGACTCCTCTTCACGAGAAAGTCAA---G-GAA-GACAACACTAAAAGA
* * * * * * *
2964408 TTGACTCATCTTC-CTGAGAAAGTTAA-TAATAACACCATTAAAAAGG
1 TTGACTCCTCTTCAC-GAGAAAGTCAAGGAA-GACAACACT-AAAAGA
* * *
2964454 TTAACTTCTCTTCACGAGAAAGTCAAGTAAGACAACACTAAAAGA
1 TTGACTCCTCTTCACGAGAAAGTCAAGGAAGACAACACTAAAAGA
** * * * *
2964499 TCAACTCCTCTTCATGAGAAAGTCAAGGAAAACAATACTGAAAGA
1 TTGACTCCTCTTCACGAGAAAGTCAAGGAAGACAACACTAAAAGA
* * * *
2964544 TTGACTCCTCTTCACGAGAGAGTCAAGGAAAACAACGCTAAAATA
1 TTGACTCCTCTTCACGAGAAAGTCAAGGAAGACAACACTAAAAGA
** * * * **
2964589 TTGACTCCTCTTCGTGAGAAAGTCAAGAAAGAAAACAATAAATTA
1 TTGACTCCTCTTCACGAGAAAGTCAAGGAAGACAACACTAAAAGA
* * * * *
2964634 TTGGCTCCTCTTCAAGAGAAAGTCAAAGAAGATAACACTAAAATA
1 TTGACTCCTCTTCACGAGAAAGTCAAGGAAGACAACACTAAAAGA
** *
2964679 TTGACTTGTCTTCATGAGAA
1 TTGACTCCTCTTCACGAGAA
2964699 TAACAATGAT
Statistics
Matches: 236, Mismatches: 51, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
45 178 0.75
46 32 0.14
47 4 0.02
49 1 0.00
50 21 0.09
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (45 bp):
TTGACTCCTCTTCACGAGAAAGTCAAGGAAGACAACACTAAAAGA
Found at i:2964677 original size:90 final size:88
Alignment explanation
Indices: 2964358--2964698 Score: 283
Period size: 90 Copynumber: 3.7 Consensus size: 88
2964348 TACTGAATAG
* * ** * *
2964358 TTGACTCCTCTCCACGAGAAAGTCAAGTTGAGAATGACATCACTAAAAGGTTGACTCATCTTCCT
1 TTGACTCCTCTTCACGAGAAAGTCAA----AGAA-GACAACACTAAAATATTGACTCCTCTTCAT
* * * *
2964423 GAGAAAGTTAA-TAATAACACCATTAAAAAGG
61 GAGAAAGTCAAGGAA-AACA--A-TACAAAGA
* * * **
2964454 TTAACTTCTCTTCACGAGAAAGTC-AAGTAAGACAACACTAAAAGATCAACTCCTCTTCATGAGA
1 TTGACTCCTCTTCACGAGAAAGTCAAAG-AAGACAACACTAAAATATTGACTCCTCTTCATGAGA
2964518 AAGTCAAGGAAAACAATACTGAAAGA
65 AAGTCAAGGAAAACAATAC--AAAGA
* * * * *
2964544 TTGACTCCTCTTCACGAGAGAGTCAAGGAAAACAACGCTAAAATATTGACTCCTCTTCGTGAGAA
1 TTGACTCCTCTTCACGAGAAAGTCAAAGAAGACAACACTAAAATATTGACTCCTCTTCATGAGAA
**
2964609 AGTCAAGAAAGAAAACAATA-AATTA
66 AGTCAAG---GAAAACAATACAAAGA
* * * **
2964634 TTGGCTCCTCTTCAAGAGAAAGTCAAAGAAGATAACACTAAAATATTGACTTGTCTTCATGAGAA
1 TTGACTCCTCTTCACGAGAAAGTCAAAGAAGACAACACTAAAATATTGACTCCTCTTCATGAGAA
2964699 TAACAATGAT
Statistics
Matches: 202, Mismatches: 35, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
88 2 0.01
89 1 0.00
90 121 0.60
91 42 0.21
92 4 0.02
93 10 0.05
95 1 0.00
96 21 0.10
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (88 bp):
TTGACTCCTCTTCACGAGAAAGTCAAAGAAGACAACACTAAAATATTGACTCCTCTTCATGAGAA
AGTCAAGGAAAACAATACAAAGA
Found at i:2964748 original size:38 final size:38
Alignment explanation
Indices: 2964695--2965087 Score: 518
Period size: 38 Copynumber: 10.2 Consensus size: 38
2964685 TGTCTTCATG
* * *
2964695 AGAATAACAATGATTGACTTATCTTCATGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
*
2964733 AGAATAACAAAGATTGAATTCTCTTCACGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
* * *
2964771 AGAATAACCAAGAATGACTTCTCTTCACAAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
* * *
2964809 ATAAAAACAAAGATTGACTTCTCTTTACGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
2964847 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
* * * *
2964885 AAAATAATAAAAATTGACTTCTCTTAACGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
* * *
2964923 AGAATAACAAAGATTGACTTTTCCTCAAGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
*
2964961 AAAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
* * *
2964999 AAAATAACAAAGACTGACTTCTCTTCACGAGGAAGCCA
1 AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
* * *
2965037 ATAA-AGACAAAGATAGATTGACTCCTCTTCACGAGGGAGTCA
1 AGAATA-AC--A-A-AGATTGACTTCTCTTCACGAGGAAGTCA
2965079 AGAATAACA
1 AGAATAACA
2965088 TTGAAAGATT
Statistics
Matches: 309, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
37 1 0.00
38 275 0.89
40 2 0.01
41 1 0.00
42 29 0.09
43 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (38 bp):
AGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
Found at i:2965971 original size:42 final size:41
Alignment explanation
Indices: 2965901--2965995 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 41
2965891 TACGAATGGT
*
2965901 CCGAAGGACTTATCATCTCGCTCGAAAGACTTACAGATGAC
1 CCGAAGGACTTATCATCTCGCTCAAAAGACTTACAGATGAC
* * *
2965942 CCGAAGGATTTAATCATCAT-GCTCAAAAGACTTACTGATGGC
1 CCGAAGGACTT-ATCATC-TCGCTCAAAAGACTTACAGATGAC
2965984 CCGAAGGACTTA
1 CCGAAGGACTTA
2965996 CTAATTTAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 11 0.23
42 35 0.74
43 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (41 bp):
CCGAAGGACTTATCATCTCGCTCAAAAGACTTACAGATGAC
Found at i:2966387 original size:256 final size:256
Alignment explanation
Indices: 2965485--2966514 Score: 1465
Period size: 257 Copynumber: 4.0 Consensus size: 256
2965475 ATAGTCAAAT
* *
2965485 TTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTAAAAAATTTCATT
1 TTTGAAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTAAAAAATTTCAAT
* * * * * *
2965550 TTCTGAAAACATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTGAAAATCACGTGGAAA
66 TTCAGAAAATACTAAATGAGAAACTTTGAAAATCACTTTCTCA-TTTTTCAAATTCATGT-GAAA
* * ** * * *
2965615 ACATCATACCCGAAGTTCTTATAGATGGCCCGAAGGACTTAACATCTTACTCGAAAGA-TTGGCA
129 ACATCCTACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTCACTCGAAAGACTT-ACA
* * *
2965679 GATGATCCGAAGGATTTAATTATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACTAA
193 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAA
* *
2965743 TTTTGAAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTGTCTTAATTTTAAAAAATTTCAA
1 -TTTGAAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTAAAAAATTTCAA
* ** * * *
2965808 TTTCTA-AAAATACTAAATGAGAAACTTTAAAAATTGCTTTCTGATTTTTTAAACTCATGTGAAA
65 TTTC-AGAAAATACTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTCATGTGAAA
* * * *
2965872 ATATCCTACCCGAAGGTCTTACGAATGGTCCGAAGGACTTATCATCTCGCTCGAAAGACTTACAG
129 ACATCCTACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTCACTCGAAAGACTTACAG
*
2965937 ATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACTAA
194 ATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAA
* * * *
2966000 TTTAGAAAATAATTTATTGGGTAAGAAACTTT-GAAATTCTCTTTCTTACTTTTCAAAAATTTCA
1 TTT-GAAAATAGTTTACTGGGTAAGAAACTTTGGAAA-TCACTTTCTTACTTTTAAAAAATTTCA
* *
2966064 ATTT-ATGAAAATACTAAATGAGAAACTTTGGAAATCATTTTCTCATTTTTCAAATTCATGTGAA
64 ATTTCA-GAAAATACTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTCATGTGAA
* * * * *
2966128 AACATCTTACCCGAAGGTCTTACGGATGGCCCGAATGACTTATCATCCCACTTGAAAGACTTAGA
128 AACATCCTACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTCACTCGAAAGACTTACA
* *
2966193 GATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTACTAA
193 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAA
* * * *
2966257 TTTGGAAATAGTTTACTGGGTAAGAAACTTTGTAAATCGCTTTCTTACTTTTCAAAAATTTCAAT
1 TTTGAAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTAAAAAATTTCAAT
* * *
2966322 TTCAGAAAATACTAAATAAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAAC
66 TTCAGAAAATACTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTCATGTGAAAAC
* **
2966387 ATCCTACCCGAAGGTCTTACGGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGACTTACAGAT
131 ATCCTACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTCACTCGAAAGACTTACAGAT
*
2966452 GACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACTAA
196 GACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAA
2966513 TT
1 TT
2966515 AAGAAACTTT
Statistics
Matches: 690, Mismatches: 73, Indels: 19
0.88 0.09 0.02
Matches are distributed among these distances:
255 1 0.00
256 238 0.34
257 340 0.49
258 15 0.02
259 96 0.14
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (256 bp):
TTTGAAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTAAAAAATTTCAAT
TTCAGAAAATACTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTCATGTGAAAAC
ATCCTACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTCACTCGAAAGACTTACAGAT
GACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAA
Found at i:2966471 original size:513 final size:516
Alignment explanation
Indices: 2965490--2966520 Score: 1556
Period size: 513 Copynumber: 2.0 Consensus size: 516
2965480 CAAATTTTGG
* * *
2965490 AAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTAAAAAATTTCATTTTCTG
1 AAATAATTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTAAAAAATTTCAATTTATG
* *
2965555 AAAACATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTGAAAATCACGTGGAAAACATC
66 AAAACACTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTCAAAATCACGTGGAAAACATC
* * ** *
2965620 ATACCCGAAGTTCTTATAGATGGCCCGAAGGACTTAACATCTTACTCGAAAGATTGGCAGATGAT
131 ATACCCGAAGGTCTTACAGATGGCCCGAAGGACTTAACATCCCACTCGAAAGATTAGCAGATGAT
* *
2965685 CCGAAGGATTTAATTATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACTAATTTTGAA
196 CCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAATTTTGAA
2965750 AATAGTTTACTGGGTAAGAAACTTTGGAAATCACTGTCTTAATTTTAAAAAATTTCAATTTCTAA
261 AATAGTTTACTGGGTAAGAAACTTTGGAAATCACTGTCTTAATTTTAAAAAATTTCAATTTCTAA
* * * * *
2965815 AAATACTAAATGAGAAACTTTAAAAATTGCTTTCTGATTTTTTAAACTCATGTGAAAATATCCTA
326 AAATACTAAATAAGAAACTTTAAAAATCGCTTTCTCATTTTTCAAACTCATGTGAAAACATCCTA
2965880 CCCGAAGGTCTTACGAATGGTCCGAAGGACTTATCATCTCGCTCGAAAGACTTACAGATGACCCG
391 CCCGAAGGTCTTACGAATGGTCCGAAGGACTTATCATCTCGCTCGAAAGACTTACAGATGACCCG
* *
2965945 AAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACTAATTTAGA
456 AAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAAGACTTACTAATTAAGA
* * *
2966006 AAATAATTTATTGGGTAAGAAACTTT-GAAATTCTCTTTCTTACTTTTCAAAAATTTCAATTTAT
1 AAATAATTTACTGGGTAAGAAACTTTGGAAA-TCACTTTCTTACTTTTAAAAAATTTCAATTTAT
* * * * *
2966070 GAAAATACTAAATGAGAAACTTTGGAAATCATTTTCTCA-TTTTTCAAATTCATGT-GAAAACAT
65 GAAAACACTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTCAAAATCACGTGGAAAACAT
* * * * *
2966133 CTTACCCGAAGGTCTTACGGATGGCCCGAATGACTTATCATCCCACTTGAAAGACTTAG-AGATG
130 CATACCCGAAGGTCTTACAGATGGCCCGAAGGACTTAACATCCCACTCGAAAGA-TTAGCAGATG
*
2966197 A-CCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTACTAA-TTT
194 ATCC-GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAATTTT
* * * * * *
2966260 GGAAATAGTTTACTGGGTAAGAAACTTTGTAAATCGCTTTCTTACTTTTCAAAAATTTCAATTTC
258 GAAAATAGTTTACTGGGTAAGAAACTTTGGAAATCACTGTCTTAATTTTAAAAAATTTCAATTTC
** *
2966325 -AGAAAATACTAAATAAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACAT
323 TA-AAAATACTAAATAAGAAACTTTAAAAATCGCTTTCTCATTTTTCAAACTCATGTGAAAACAT
* *
2966389 CCTACCCGAAGGTCTTACGGATGG-CCTGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATG
387 CCTACCCGAAGGTCTTACGAATGGTCC-GAAGGACTTATCATCTCGCTCGAAAGACTTACAGATG
*
2966453 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACTAATTAAG
451 ACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAAGACTTACTAATTAAG
2966518 A
516 A
2966519 AA
1 AA
2966521 CTTTTGTAAA
Statistics
Matches: 465, Mismatches: 45, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
512 3 0.01
513 242 0.52
514 112 0.24
515 20 0.04
516 88 0.19
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (516 bp):
AAATAATTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTAAAAAATTTCAATTTATG
AAAACACTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTCAAAATCACGTGGAAAACATC
ATACCCGAAGGTCTTACAGATGGCCCGAAGGACTTAACATCCCACTCGAAAGATTAGCAGATGAT
CCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAATTTTGAA
AATAGTTTACTGGGTAAGAAACTTTGGAAATCACTGTCTTAATTTTAAAAAATTTCAATTTCTAA
AAATACTAAATAAGAAACTTTAAAAATCGCTTTCTCATTTTTCAAACTCATGTGAAAACATCCTA
CCCGAAGGTCTTACGAATGGTCCGAAGGACTTATCATCTCGCTCGAAAGACTTACAGATGACCCG
AAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAAGACTTACTAATTAAGA
Found at i:2966478 original size:42 final size:41
Alignment explanation
Indices: 2966402--2966508 Score: 142
Period size: 42 Copynumber: 2.6 Consensus size: 41
2966392 ACCCGAAGGT
* * *
2966402 CTTACGGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGA
1 CTTACAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
* *
2966443 CTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGA
1 CTTACAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGA
* *
2966485 CTTACTGATGGCCCGAAAGACTTA
1 CTTACAGATGGCCCGAAGGACTTA
2966509 CTAATTAAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 20 0.36
42 36 0.64
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (41 bp):
CTTACAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:2968302 original size:21 final size:22
Alignment explanation
Indices: 2968269--2968312 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
2968259 ATTTATTTTC
* *
2968269 TTTCTTCTTTTTTCTC-TTCTT
1 TTTCATCTATTTTCTCTTTCTT
*
2968290 TTTCATCTATTTTTTCTTTCTT
1 TTTCATCTATTTTCTCTTTCTT
2968312 T
1 T
2968313 CTTTTCTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTCATCTATTTTCTCTTTCTT
Found at i:2968344 original size:19 final size:19
Alignment explanation
Indices: 2968302--2968362 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
2968292 TCATCTATTT
* *
2968302 TTTCTTTCTTTCTTTTCT-
1 TTTCTATCTTTTTTTTCTC
2968320 TCTTCTATCTTTTTTTTCTC
1 T-TTCTATCTTTTTTTTCTC
*
2968340 TTTCTATCTTTTCTCTTCTC
1 TTTCTATCTTTT-TTTTCTC
2968360 TTT
1 TTT
2968363 ATCTCTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 1 0.03
19 26 0.70
20 10 0.27
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCTATCTTTTTTTTCTC
Found at i:2968360 original size:20 final size:19
Alignment explanation
Indices: 2968278--2968362 Score: 67
Period size: 16 Copynumber: 4.7 Consensus size: 19
2968268 CTTTCTTCTT
*
2968278 TTTTCTCTTCTTTTTC-ATC
1 TTTT-TCTTCTCTTTCTATC
* *
2968297 TATTT-TT-TCTTTCTTTC
1 TTTTTCTTCTCTTTCTATC
2968314 -TTTTC-T-TC-TTCTATC
1 TTTTTCTTCTCTTTCTATC
*
2968329 TTTTTTTTCTCTTTCTATC
1 TTTTTCTTCTCTTTCTATC
2968348 TTTTCTCTTCTCTTT
1 TTTT-TCTTCTCTTT
2968363 ATCTCTATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
15 6 0.12
16 15 0.29
17 5 0.10
18 3 0.06
19 14 0.27
20 9 0.17
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTCTTCTCTTTCTATC
Found at i:2972471 original size:17 final size:16
Alignment explanation
Indices: 2972430--2972471 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
2972420 AAATACCTTT
2972430 TAAAATAATTTTAAGA
1 TAAAATAATTTTAAGA
2972446 -AAAATAATTTTAAAAGA
1 TAAAATAATTTT--AAGA
2972463 TAAAA-AATT
1 TAAAATAATT
2972472 GATCTGCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.48
17 8 0.35
18 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
TAAAATAATTTTAAGA
Found at i:2974704 original size:12 final size:12
Alignment explanation
Indices: 2974665--2974724 Score: 68
Period size: 12 Copynumber: 4.8 Consensus size: 12
2974655 TTTTTTCCTG
*
2974665 TAATAATCATAT
1 TAATAATAATAT
2974677 TAATTAATTAATTAT
1 TAA-TAA-TAA-TAT
2974692 TAATAATAATAT
1 TAATAATAATAT
2974704 TAATAATAATGA-
1 TAATAATAAT-AT
2974716 TAATAATAA
1 TAATAATAA
2974725 GTTAAAATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
12 25 0.58
13 7 0.16
14 5 0.12
15 6 0.14
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:2976048 original size:11 final size:11
Alignment explanation
Indices: 2976005--2976057 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
2975995 AGGGATGATA
*
2976005 AAATAATAAAGT
1 AAATAA-AAAAT
2976017 AAATGAATAAAA-
1 AAAT-AA-AAAAT
2976029 AAA-AAAAAAT
1 AAATAAAAAAT
2976039 AAATAAAAAAT
1 AAATAAAAAAT
2976050 AAATAAAA
1 AAATAAAA
2976058 CATACTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
9 4 0.11
10 5 0.14
11 15 0.41
12 7 0.19
13 6 0.16
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:2976138 original size:24 final size:23
Alignment explanation
Indices: 2976075--2976140 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
2976065 AAATTAAAAG
*
2976075 AAAAAATGAATAACT-AAAATGA
1 AAAAAATGAATAACTAAAAAGGA
** *
2976097 AAAAAA-GCTTAAATTAAAAAGGAA
1 AAAAAATGAAT-AACTAAAAAGG-A
2976121 AAAAAATGAATAACTAAAAA
1 AAAAAATGAATAACTAAAAA
2976141 TTTAAAGGAC
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.06
22 9 0.27
23 5 0.15
24 15 0.45
25 2 0.06
ACGTcount: A:0.70, C:0.05, G:0.09, T:0.17
Consensus pattern (23 bp):
AAAAAATGAATAACTAAAAAGGA
Found at i:2977331 original size:21 final size:21
Alignment explanation
Indices: 2977298--2977337 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2977288 TGGCTGCTGG
*
2977298 AAAACGGTTTAACCGGTTTTC
1 AAAACGGTTTAACCAGTTTTC
2977319 AAAA-GGTTATAACCAGTTT
1 AAAACGGTT-TAACCAGTTT
2977338 GACCGGTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
AAAACGGTTTAACCAGTTTTC
Found at i:2977372 original size:19 final size:20
Alignment explanation
Indices: 2977348--2977396 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
2977338 GACCGGTCTC
* *
2977348 GACCGGTTC-GAACCGGTTT
1 GACCGGTTCTGAACCAGATT
2977367 GACCGG-TCTGAACCAGATT
1 GACCGGTTCTGAACCAGATT
2977386 GACCGG-TCTGA
1 GACCGGTTCTGA
2977397 CCCGAGCGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.20, C:0.27, G:0.31, T:0.22
Consensus pattern (20 bp):
GACCGGTTCTGAACCAGATT
Found at i:2977418 original size:18 final size:17
Alignment explanation
Indices: 2977395--2977438 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
2977385 TGACCGGTCT
*
2977395 GACCCGAGCGACTGACCC
1 GACCCGACCG-CTGACCC
*
2977413 GACCCGACCGTTGACCC
1 GACCCGACCGCTGACCC
2977430 GACCCGACC
1 GACCCGACC
2977439 ATTGACTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.20, C:0.48, G:0.25, T:0.07
Consensus pattern (17 bp):
GACCCGACCGCTGACCC
Found at i:2977429 original size:17 final size:17
Alignment explanation
Indices: 2977407--2977444 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
2977397 CCCGAGCGAC
*
2977407 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCAT
2977424 TGACCCGACCCGACCAT
1 TGACCCGACCCGACCAT
2977441 TGAC
1 TGAC
2977445 TGTTGACCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCAT
Found at i:2977456 original size:18 final size:18
Alignment explanation
Indices: 2977433--2977469 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2977423 TTGACCCGAC
*
2977433 CCGACCATTGACTGTTGA
1 CCGACCATTGACCGTTGA
*
2977451 CCGACCGTTGACCGTTGA
1 CCGACCATTGACCGTTGA
2977469 C
1 C
2977470 TTTCTTTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.32, G:0.24, T:0.24
Consensus pattern (18 bp):
CCGACCATTGACCGTTGA
Found at i:2979732 original size:2 final size:2
Alignment explanation
Indices: 2979721--2979781 Score: 108
Period size: 2 Copynumber: 31.5 Consensus size: 2
2979711 TTTTCAAAAC
2979721 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2979762 TA -A TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
2979782 TCAAAATGTT
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 55 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2979815 original size:34 final size:34
Alignment explanation
Indices: 2979765--2979884 Score: 195
Period size: 34 Copynumber: 3.5 Consensus size: 34
2979755 ATATATATAA
2979765 TATATATATATATATATTCAAAATGTTTTCAAAAC
1 TATATA-ATATATATATTCAAAATGTTTTCAAAAC
*
2979800 TATATAATATATATATTTCAAAATGTTTTCAAAAG
1 TATATAATATATATA-TTCAAAATGTTTTCAAAAC
* *
2979835 TATATAATATATATTTTTAAAATGTTTTCAAAAC
1 TATATAATATATATATTCAAAATGTTTTCAAAAC
2979869 TATATAATATATATAT
1 TATATAATATATATAT
2979885 ATATATATAT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
34 41 0.52
35 38 0.48
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (34 bp):
TATATAATATATATATTCAAAATGTTTTCAAAAC
Found at i:2979819 original size:152 final size:146
Alignment explanation
Indices: 2979609--2979894 Score: 380
Period size: 152 Copynumber: 1.9 Consensus size: 146
2979599 CAAATAAATA
* * *
2979609 ATAATATATTATATATTGTTTCAAAAATATTTCCAAAACTATATAATATGTATTTTTCAAAAATA
1 ATAATATATTATATATTGATTCAAAAATATTTCCAAAACTATATAATATATATATTTC-AAAATA
* *
2979674 TTTT-AAAATTAAATTATATATATTTTTTCAGAAATTATTTTCAAAACTATAATATATATATATA
65 TTTTCAAAAGTAAATAATATATA-TTTTT-A-AAA-TATTTTCAAAACTAT-ATA-ATATATATA
2979738 TATATATATATATATATATATAT
124 TATATATATATATATATATATAT
* *
2979761 ATAATATATATATATATAT-ATTC-AAAATGTTTTCAAAACTATATAATATATATATTTCAAAAT
1 ATAATATAT-TATATAT-TGATTCAAAAATATTTCCAAAACTATATAATATATATATTTCAAAAT
* * *
2979824 GTTTTCAAAAGTATATAATATATATTTTTAAAATGTTTTCAAAACTATATAATATATATATATAT
64 ATTTTCAAAAGTAAATAATATATATTTTTAAAATATTTTCAAAACTATATAATATATATATATAT
2979889 ATATAT
129 ATATAT
2979895 TTAAAACTGA
Statistics
Matches: 121, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
146 20 0.17
147 3 0.02
148 14 0.12
149 3 0.02
150 1 0.01
151 14 0.12
152 55 0.45
153 10 0.08
154 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (146 bp):
ATAATATATTATATATTGATTCAAAAATATTTCCAAAACTATATAATATATATATTTCAAAATAT
TTTCAAAAGTAAATAATATATATTTTTAAAATATTTTCAAAACTATATAATATATATATATATAT
ATATATATATATATAT
Found at i:2980868 original size:85 final size:85
Alignment explanation
Indices: 2980738--2981143 Score: 499
Period size: 85 Copynumber: 4.8 Consensus size: 85
2980728 ATATGTCATC
* * * *
2980738 GAGCTTAATGGAATCGAACTCGACA-GTTTTTGCTGACAGATAACCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTC-AAAGGTTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATG
2980802 TTGTAAATTTGATATGCCCTT
65 TTGTAAATTTGATATGCCCTT
* *
2980823 GAGCTGAATGTAATCGAACTCAAAGGTTTTTGCTGACAAATAACCCTTCTCGCCTTGAGCTATGT
1 GAGCTGAATGTAATCGAACTCAAAGGTTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGT
*
2980888 TGTACATTTGATATGCCCTT
66 TGTAAATTTGATATGCCCTT
* ** ** * *
2980908 AAGGAGAATGTAATCGAACTCAAAGGTTTTTATTGACAGATAACCCTTTTCGCCTTGAGTTATGC
1 GAGCTGAATGTAATCGAACTCAAAGGTTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGT
* *
2980973 TGTAAATTTGATTTGTCCTT
66 TGTAAATTTGATATGCCCTT
* * * * * * * *
2980993 GAGTTGAATGTAATAGAACTCGAAGGTTTTGGTTGGCAGATAGCCCTTCTCACCTTGAGTTATGT
1 GAGCTGAATGTAATCGAACTCAAAGGTTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGT
* * *
2981058 TATAAATTTGATATGTCCTA
66 TGTAAATTTGATATGCCCTT
* * * *
2981078 GAGCTGAGTGTAATCGAACTCGAAGGGTTTTTTGCTGGCAGATAGCCCTTCTCGCCTTGAGTTAT
1 GAGCTGAATGTAATCGAACTC-AAAGG-TTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTAT
2981143 G
64 G
2981144 CTGCAAATAG
Statistics
Matches: 278, Mismatches: 40, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
84 2 0.01
85 238 0.86
86 3 0.01
87 35 0.13
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (85 bp):
GAGCTGAATGTAATCGAACTCAAAGGTTTTTGCTGACAGATAACCCTTCTCGCCTTGAGTTATGT
TGTAAATTTGATATGCCCTT
Found at i:2986662 original size:24 final size:24
Alignment explanation
Indices: 2986617--2986731 Score: 115
Period size: 24 Copynumber: 4.8 Consensus size: 24
2986607 GATATCATAA
* *
2986617 ATCAAAACATAATTCA-AGTCAGAT
1 ATCAGAACATAATTCAGA-TCAGGT
* *
2986641 ATAAGAATATAATTCAGATCAGGT
1 ATCAGAACATAATTCAGATCAGGT
2986665 ATCAGAACATAATTCAGATCAGGT
1 ATCAGAACATAATTCAGATCAGGT
* * * *
2986689 ATCAGAACAGAATCCAGGTCATGT
1 ATCAGAACATAATTCAGATCAGGT
* * *
2986713 ATCATAATAGAATTCAGAT
1 ATCAGAACATAATTCAGAT
2986732 AAAATGTTCA
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
24 75 0.99
25 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAGAACATAATTCAGATCAGGT
Found at i:2989055 original size:35 final size:36
Alignment explanation
Indices: 2988968--2989056 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 36
2988958 AAAAATAAAA
*
2988968 ATATATTATATATATTCTCAAAAATATTTCCAAAACT
1 ATATATTATATAT-TTTTCAAAAATATTTCCAAAACT
* * *
2989005 ATATAATATATATTTTTCAAAAATATTT-TAAAATT
1 ATATATTATATATTTTTCAAAAATATTTCCAAAACT
*
2989040 ATATATTTTATATTTTT
1 ATATATTATATATTTTT
2989057 TTTTCAGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 20 0.43
36 14 0.30
37 12 0.26
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (36 bp):
ATATATTATATATTTTTCAAAAATATTTCCAAAACT
Found at i:2989091 original size:39 final size:37
Alignment explanation
Indices: 2988967--2989219 Score: 125
Period size: 39 Copynumber: 6.6 Consensus size: 37
2988957 TAAAAATAAA
* *
2988967 AATATATTATATATATTCTCAAAAATATTTCCAAAACTAT
1 AATATA-TATATAT-TTTTCAAAAATATTT-TAAAACTAT
*
2989007 -ATA-ATATATATTTTTCAAAAATATTTTAAAATTAT
1 AATATATATATATTTTTCAAAAATATTTTAAAACTAT
* * * *
2989042 ATATTTTATATTTTTTTTTCAGAAATCAATTTTAAAACTAT
1 A-A-TATATATATATTTTTCAAAAAT--ATTTTAAAACTAT
2989083 AATATATATATATATATATAT-ATTTCAAAATATTTTCAAAACTAT
1 AATATATATATAT-T-T-T-TCA----AAAATATTTT-AAAACTAT
*
2989128 -ATA-ATATATA-TTTTC-AAAATGTTTTCAAAACTAT
1 AATATATATATATTTTTCAAAAATATTTT-AAAACTAT
* **
2989162 -ATAATATATACATATTTT-AAAGCTGATTTTAAAAC-AT
1 AAT-ATATATATAT-TTTTCAAAAAT-ATTTTAAAACTAT
* *
2989199 TATA-ATATATGTTTTT-AAAAA
1 AATATATATATATTTTTCAAAAA
2989220 CCGTTTTCTA
Statistics
Matches: 169, Mismatches: 21, Indels: 51
0.70 0.09 0.21
Matches are distributed among these distances:
34 20 0.12
35 15 0.09
36 26 0.15
37 11 0.07
38 17 0.10
39 32 0.19
40 3 0.02
41 15 0.09
42 2 0.01
43 8 0.05
44 8 0.05
45 8 0.05
46 4 0.02
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (37 bp):
AATATATATATATTTTTCAAAAATATTTTAAAACTAT
Found at i:2989093 original size:41 final size:39
Alignment explanation
Indices: 2988985--2989141 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 39
2988975 ATATATATTC
* *
2988985 TCAAAAATATTTCCAAAACTATATA--ATATA--TATTTT
1 TCAAAAATATTT-TAAAACTATATATTATATATTTTTTTT
* *
2989021 TCAAAAATATTTTAAAATTATATATTTTATATTTTTTTT
1 TCAAAAATATTTTAAAACTATATATTATATATTTTTTTT
* *
2989060 TCAGAAATCAATTTTAAAACTATAATATATATATATATATATATATT
1 TCAAAAAT--ATTTTAAAACTAT-ATAT-TATATAT-T-T-T-TTTT
*
2989107 TC-AAAATATTTTCAAAACTATATAATATATATTTT
1 TCAAAAATATTTT-AAAACTATATATTATATATTTT
2989142 CAAAATGTTT
Statistics
Matches: 98, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
35 10 0.10
36 12 0.12
37 4 0.04
39 12 0.12
40 1 0.01
41 13 0.13
42 5 0.05
43 13 0.13
44 9 0.09
45 9 0.09
46 5 0.05
47 5 0.05
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (39 bp):
TCAAAAATATTTTAAAACTATATATTATATATTTTTTTT
Found at i:2989143 original size:34 final size:35
Alignment explanation
Indices: 2989089--2989171 Score: 141
Period size: 34 Copynumber: 2.4 Consensus size: 35
2989079 CTATAATATA
2989089 TATATATATATATATATTTCAAAATATTTTCAAAAC
1 TATATA-ATATATATATTTCAAAATATTTTCAAAAC
*
2989125 TATATAATATATAT-TTTCAAAATGTTTTCAAAAC
1 TATATAATATATATATTTCAAAATATTTTCAAAAC
2989159 TATATAATATATA
1 TATATAATATATA
2989172 CATATTTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 32 0.70
35 8 0.17
36 6 0.13
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.45
Consensus pattern (35 bp):
TATATAATATATATATTTCAAAATATTTTCAAAAC
Found at i:2989196 original size:38 final size:37
Alignment explanation
Indices: 2989087--2989208 Score: 139
Period size: 34 Copynumber: 3.3 Consensus size: 37
2989077 AACTATAATA
2989087 TATATATATATATATATATTTCAAAAT-ATTTTCAAAAC
1 TATATA-ATATATA-ATATTTCAAAATGATTTTCAAAAC
2989125 TATATAATATAT-AT-TTTCAAAATG-TTTTCAAAAC
1 TATATAATATATAATATTTCAAAATGATTTTCAAAAC
* *
2989159 TATATAATATATACATATTTTAAAGCTGATTTT-AAAAC
1 TATATAATATATA-ATATTTCAAA-ATGATTTTCAAAAC
2989197 -ATTATAATATAT
1 TA-TATAATATAT
2989209 GTTTTTAAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 14
0.82 0.02 0.15
Matches are distributed among these distances:
34 31 0.41
35 2 0.03
36 2 0.03
37 13 0.17
38 23 0.31
39 4 0.05
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (37 bp):
TATATAATATATAATATTTCAAAATGATTTTCAAAAC
Found at i:2989260 original size:23 final size:26
Alignment explanation
Indices: 2989223--2989270 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 26
2989213 TTAAAAACCG
2989223 TTTTCTAAAAATTATA-TAT-TATAA
1 TTTTCTAAAAATTATACTATATATAA
*
2989247 TTTTC-AAAAGTTATACTATATATA
1 TTTTCTAAAAATTATACTATATATA
2989271 TATAATCCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 8 0.38
25 4 0.19
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTCTAAAAATTATACTATATATAA
Found at i:2989380 original size:47 final size:47
Alignment explanation
Indices: 2989323--2989457 Score: 150
Period size: 47 Copynumber: 2.9 Consensus size: 47
2989313 TTATTTGAGA
*
2989323 AAAATGAGAGATTAGTTTTAGAAGATCTCTCAAAATATTTTTCAAAAG
1 AAAA-GAGAGATTAATTTTAGAAGATCTCTCAAAATATTTTTCAAAAG
* *
2989371 AAAAGAGAGATTAATTTCT-GAAGATCTCT-TAAATCATTTTTCAAAGG
1 AAAAGAGAGATTAATTT-TAGAAGATCTCTCAAAAT-ATTTTTCAAAAG
* * * *
2989418 GAAAGAG-GAATTAATTTAATAAGATTTCTCAAAATATTTT
1 AAAAGAGAG-ATTAATTTTAGAAGATCTCTCAAAATATTTT
2989458 CTAAAAAAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
46 5 0.07
47 60 0.81
48 9 0.12
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (47 bp):
AAAAGAGAGATTAATTTTAGAAGATCTCTCAAAATATTTTTCAAAAG
Found at i:2991139 original size:30 final size:28
Alignment explanation
Indices: 2991118--2991172 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
2991108 CGGTGATCGG
2991118 TATATTTACCGATCTAACACCGGTCAGAT
1 TATATTTACCGATCTAACACCGGT-AGAT
* *
2991147 TATATTTCCCGATCTAACACCCGTAG
1 TATATTTACCGATCTAACACCGGTAG
2991173 CAGTAAAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (28 bp):
TATATTTACCGATCTAACACCGGTAGAT
Found at i:2995015 original size:35 final size:34
Alignment explanation
Indices: 2994930--2995016 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
2994920 ATTTGGTATT
*
2994930 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
2994964 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
2995002 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
2995017 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:2995615 original size:18 final size:18
Alignment explanation
Indices: 2995592--2995643 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
2995582 AAAGGCGATG
*
2995592 GCGGCATCATATATGGTT
1 GCGGCATCATAAATGGTT
2995610 GCGGCATCATAAATGGTT
1 GCGGCATCATAAATGGTT
*
2995628 GTGGCATCATAAATGG
1 GCGGCATCATAAATGG
2995644 CAGCTGTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (18 bp):
GCGGCATCATAAATGGTT
Found at i:2997340 original size:17 final size:18
Alignment explanation
Indices: 2997320--2997360 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2997310 GAATTATATT
2997320 AGTAAAATA-TGAAATAA
1 AGTAAAATACTGAAATAA
*
2997337 AGTAAAATACTTAAATAA
1 AGTAAAATACTGAAATAA
*
2997355 ATTAAA
1 AGTAAA
2997361 TACATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (18 bp):
AGTAAAATACTGAAATAA
Found at i:2998461 original size:22 final size:23
Alignment explanation
Indices: 2998420--2998467 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
2998410 TTTTTATATT
*
2998420 TATTATATATTATATCATAT-CA
1 TATTATACATTATATCATATACA
2998442 TATTATACATTATA-CTATATACA
1 TATTATACATTATATC-ATATACA
2998465 TAT
1 TAT
2998468 GTTTATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 1 0.04
22 17 0.74
23 5 0.22
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTATACATTATATCATATACA
Found at i:2998529 original size:18 final size:19
Alignment explanation
Indices: 2998502--2998540 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
2998492 TTTATCATAA
*
2998502 TTTATTTCTTT-TTTTTAT
1 TTTATATCTTTATTTTTAT
2998520 TTTATATCTTTAATTTTTAT
1 TTTATATCTTT-ATTTTTAT
2998540 T
1 T
2998541 ATTCTCTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTATATCTTTATTTTTAT
Found at i:3001858 original size:47 final size:47
Alignment explanation
Indices: 3001804--3001952 Score: 239
Period size: 47 Copynumber: 3.2 Consensus size: 47
3001794 TATTGGTTAA
3001804 TAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTATGGAATT
1 TAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTATGGAATT
*
3001851 TAAATGGTAAGTATATTGATAAAATAAGCTTTTGAGCTTATGGAATT
1 TAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTATGGAATT
* * * *
3001898 TAAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGCTTATGGGA--
1 TAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTATGGAATT
3001943 TAAATGGTAA
1 TAAATGGTAA
3001953 ACGATTTTAT
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 10 0.10
47 86 0.90
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.36
Consensus pattern (47 bp):
TAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTATGGAATT
Found at i:3002463 original size:20 final size:21
Alignment explanation
Indices: 3002423--3002472 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
3002413 CCGATTCTCC
*
3002423 CACTGTTCACGGGGTACTGTT
1 CACTATTCACGGGGTACTGTT
*
3002444 CACTATTCAC-GGGTATTGTT
1 CACTATTCACGGGGTACTGTT
3002464 CACTATTCA
1 CACTATTCA
3002473 TAAAAAATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (21 bp):
CACTATTCACGGGGTACTGTT
Found at i:3004728 original size:6 final size:6
Alignment explanation
Indices: 3004719--3004776 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
3004709 TATATATGAA
* * *
3004719 AAAAAG AAAAAG AAAGAAT AAAAAG -AAAAT AAAATG -AAAAG -AAAAG
1 AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
3004765 AAAAAG AGAAAA
1 AAAAAG A-AAAA
3004777 AAATGAGAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
5 13 0.31
6 20 0.48
7 9 0.21
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:3004780 original size:27 final size:28
Alignment explanation
Indices: 3004716--3004782 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
3004706 ATATATATAT
3004716 GAAAAAAA-GAAAAAGAAAGAATAAAAA
1 GAAAAAAATGAAAAAGAAAGAATAAAAA
*
3004743 GAAAATAAAATG-AAAAGAAAAGAA-AAAGA
1 G-AAA-AAAATGAAAAAG-AAAGAATAAAAA
3004772 GAAAAAAATGA
1 GAAAAAAATGA
3004783 GAGATGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
27 7 0.21
28 6 0.18
29 14 0.41
30 7 0.21
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (28 bp):
GAAAAAAATGAAAAAGAAAGAATAAAAA
Found at i:3004796 original size:2 final size:2
Alignment explanation
Indices: 3004791--3004816 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3004781 GAGAGATGAA
3004791 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3004817 TTCACTTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3008710 original size:47 final size:47
Alignment explanation
Indices: 3008651--3008846 Score: 315
Period size: 47 Copynumber: 4.2 Consensus size: 47
3008641 TATTGGTTAA
*
3008651 TAAATGGTAAGTATATTGATAAAATAAGCTTATAAGCTTATGGAATT
1 TAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTATGGAATT
*
3008698 TAAATGGCAAGTATATTGATAAAATAAGCTTATGAGCTTATGGAATT
1 TAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTATGGAATT
3008745 TAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTATGGAATT
1 TAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTATGGAATT
* * * * *
3008792 TAAATGGTAAGTTTTTTGGTAAAATAAGCTTACGAGCTTATGGGA--
1 TAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTATGGAATT
3008837 TAAATGGTAA
1 TAAATGGTAA
3008847 ACGATTTTAT
Statistics
Matches: 141, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
45 10 0.07
47 131 0.93
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (47 bp):
TAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTATGGAATT
Done.